Warning: Permanently added '44.208.162.104' (ED25519) to the list of known hosts. Running: /usr/bin/copr-rpmbuild --verbose --drop-resultdir --build-id 5806616 --chroot epel-9-x86_64 --detached Version: 0.64 PID: 5680 Logging PID: 5681 Task: {'appstream': False, 'background': False, 'bootstrap': 'off', 'build_id': 5806616, 'buildroot_pkgs': [], 'chroot': 'epel-9-x86_64', 'enable_net': False, 'fedora_review': False, 'git_hash': '4f26c440c06a322b4e1da60ba1fe66e1c9072380', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/iucar/R/R', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'R', 'package_version': '4.3.0-0.r84280.copr5806616', 'project_dirname': 'R', 'project_name': 'R', 'project_owner': 'iucar', 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/iucar/R/epel-9-x86_64/', 'id': 'copr_base', 'name': 'Copr repository'}], 'sandbox': 'iucar/R--iucar', 'source_json': {}, 'source_type': None, 'submitter': 'iucar', 'tags': [], 'task_id': '5806616-epel-9-x86_64', 'timeout': 18000, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/iucar/R/R /var/lib/copr-rpmbuild/workspace/workdir-qi8pl43x/R --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/iucar/R/R', '/var/lib/copr-rpmbuild/workspace/workdir-qi8pl43x/R', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-qi8pl43x/R'... Running: git checkout 4f26c440c06a322b4e1da60ba1fe66e1c9072380 cmd: ['git', 'checkout', '4f26c440c06a322b4e1da60ba1fe66e1c9072380'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-qi8pl43x/R rc: 0 stdout: stderr: Note: switching to '4f26c440c06a322b4e1da60ba1fe66e1c9072380'. 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 4f26c44 automatic import of R Running: copr-distgit-client sources cmd: ['copr-distgit-client', 'sources'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-qi8pl43x/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-rc_2023-04-18_r84280.tar.gz /usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated INFO: Calling: curl -H Pragma: -o R-rc_2023-04-18_r84280.tar.gz --location --remote-time --show-error --fail https://copr-dist-git.fedorainfracloud.org/repo/pkgs/iucar/R/R/R-rc_2023-04-18_r84280.tar.gz/md5/4886f664bd15d182d77ea4e396866199/R-rc_2023-04-18_r84280.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 33.2M 100 33.2M 0 0 270M 0 --:--:-- --:--:-- --:--:-- 272M INFO: Reading stdout from command: md5sum R-rc_2023-04-18_r84280.tar.gz Running (timeout=18000): unbuffer mock --buildsrpm --spec /var/lib/copr-rpmbuild/workspace/workdir-qi8pl43x/R/R.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-qi8pl43x/R --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1681932083.179075 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 3.5 starting (python version = 3.11.0, NVR = mock-3.5-1.fc37)... 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-qi8pl43x/R/R.spec) Config(rhel+epel-9-x86_64) Start: clean chroot Finish: clean chroot Start: chroot init INFO: mounting tmpfs at /var/lib/mock/rhel+epel-9-x86_64-1681932083.179075/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 Mock Version: 3.5 INFO: Mock Version: 3.5 Start: dnf install No matches found for the following disable plugin patterns: local, spacewalk, versionlock Updating Subscription Management repositories. Unable to read consumer identity This system is not registered with an entitlement server. You can use subscription-manager to register. Copr repository 2.9 MB/s | 314 kB 00:00 Red Hat Enterprise Linux - BaseOS 23 MB/s | 10 MB 00:00 Red Hat Enterprise Linux - AppStream 43 MB/s | 18 MB 00:00 Red Hat Enterprise Linux - CodeReady Linux Buil 16 MB/s | 4.8 MB 00:00 Extra Packages for Enterprise Linux 9 - x86_64 22 MB/s | 15 MB 00:00 Last metadata expiration check: 0:00:01 ago on Wed Apr 19 19:21:31 2023. Dependencies resolved. ================================================================================ Package Arch Version Repo Size ================================================================================ Installing: bash x86_64 5.1.8-6.el9_1 baseos 1.7 M bzip2 x86_64 1.0.8-8.el9 baseos 60 k coreutils x86_64 8.32-32.el9 baseos 1.2 M cpio x86_64 2.13-16.el9 baseos 279 k diffutils x86_64 3.7-12.el9 baseos 402 k epel-rpm-macros noarch 9-11.el9 epel 16 k findutils x86_64 1:4.8.0-5.el9 baseos 552 k gawk x86_64 5.1.0-6.el9 baseos 1.0 M glibc-minimal-langpack x86_64 2.34-40.el9_1.1 baseos 29 k grep x86_64 3.6-5.el9 baseos 273 k gzip x86_64 1.12-1.el9 baseos 167 k info x86_64 6.7-15.el9 baseos 228 k patch x86_64 2.7.6-16.el9 appstream 130 k redhat-release x86_64 9.1-1.9.el9 baseos 46 k redhat-rpm-config noarch 196-1.el9 appstream 77 k rpm-build x86_64 4.16.1.3-19.el9_1 appstream 106 k sed x86_64 4.8-9.el9 baseos 309 k shadow-utils x86_64 2:4.9-5.el9 baseos 1.2 M tar x86_64 2:1.34-6.el9_1 baseos 889 k unzip x86_64 6.0-56.el9 baseos 186 k util-linux x86_64 2.37.4-9.el9 baseos 2.3 M which x86_64 2.21-28.el9 baseos 45 k xz x86_64 5.2.5-8.el9_0 baseos 230 k Installing dependencies: alternatives x86_64 1.20-2.el9 baseos 40 k ansible-srpm-macros noarch 1-8.1.el9 epel 8.5 k audit-libs x86_64 3.0.7-103.el9 baseos 121 k basesystem noarch 11-13.el9 baseos 8.0 k binutils x86_64 2.35.2-24.el9 baseos 4.6 M binutils-gold x86_64 2.35.2-24.el9 baseos 738 k bzip2-libs x86_64 1.0.8-8.el9 baseos 42 k ca-certificates noarch 2022.2.54-90.2.el9_0 baseos 835 k coreutils-common x86_64 8.32-32.el9 baseos 2.0 M cracklib x86_64 2.9.6-27.el9 baseos 99 k cracklib-dicts x86_64 2.9.6-27.el9 baseos 3.6 M crypto-policies noarch 20220815-1.git0fbe86f.el9 baseos 85 k curl x86_64 7.76.1-19.el9_1.2 baseos 299 k cyrus-sasl-lib x86_64 2.1.27-20.el9 baseos 774 k dwz x86_64 0.14-3.el9 appstream 130 k ed x86_64 1.14.2-12.el9 baseos 78 k efi-srpm-macros noarch 6-2.el9_0 appstream 24 k elfutils x86_64 0.187-5.el9 baseos 533 k elfutils-debuginfod-client x86_64 0.187-5.el9 baseos 41 k elfutils-default-yama-scope noarch 0.187-5.el9 baseos 16 k elfutils-libelf x86_64 0.187-5.el9 baseos 199 k elfutils-libs x86_64 0.187-5.el9 baseos 257 k file x86_64 5.39-10.el9 baseos 52 k file-libs x86_64 5.39-10.el9 baseos 592 k filesystem x86_64 3.16-2.el9 baseos 4.7 M fonts-srpm-macros noarch 1:2.0.5-7.el9.1 appstream 29 k fpc-srpm-macros noarch 1.3-7.el9 epel 7.5 k gdb-minimal x86_64 10.2-10.el9 appstream 3.5 M gdbm-libs x86_64 1:1.19-4.el9 baseos 56 k ghc-srpm-macros noarch 1.5.0-6.el9 appstream 9.0 k glibc x86_64 2.34-40.el9_1.1 baseos 1.9 M glibc-common x86_64 2.34-40.el9_1.1 baseos 313 k glibc-gconv-extra x86_64 2.34-40.el9_1.1 baseos 1.7 M gmp x86_64 1:6.2.0-10.el9 baseos 320 k go-srpm-macros noarch 3.0.9-9.el9 appstream 28 k go-srpm-macros-epel noarch 1-8.el9 epel 22 k groff-base x86_64 1.22.4-10.el9 baseos 1.1 M kernel-srpm-macros noarch 1.0-11.el9 appstream 17 k keyutils-libs x86_64 1.6.1-4.el9 baseos 34 k krb5-libs x86_64 1.19.1-24.el9_1 baseos 733 k libacl x86_64 2.3.1-3.el9 baseos 26 k libarchive x86_64 3.5.3-3.el9 baseos 392 k libattr x86_64 2.5.1-3.el9 baseos 20 k libblkid x86_64 2.37.4-9.el9 baseos 110 k libbrotli x86_64 1.0.9-6.el9 baseos 317 k libcap x86_64 2.48-8.el9 baseos 76 k libcap-ng x86_64 0.8.2-7.el9 baseos 36 k libcom_err x86_64 1.46.5-3.el9 baseos 29 k libcurl x86_64 7.76.1-19.el9_1.2 baseos 287 k libdb x86_64 5.3.28-53.el9 baseos 740 k libeconf x86_64 0.4.1-2.el9 baseos 31 k libevent x86_64 2.1.12-6.el9 baseos 268 k libfdisk x86_64 2.37.4-9.el9 baseos 156 k libffi x86_64 3.4.2-7.el9 baseos 40 k libgcc x86_64 11.3.1-2.1.el9 baseos 119 k libgcrypt x86_64 1.10.0-10.el9_1 baseos 508 k libgomp x86_64 11.3.1-2.1.el9 baseos 294 k libgpg-error x86_64 1.42-5.el9 baseos 220 k libidn2 x86_64 2.3.0-7.el9 baseos 105 k libmount x86_64 2.37.4-9.el9 baseos 136 k libnghttp2 x86_64 1.43.0-5.el9 baseos 76 k libpkgconf x86_64 1.7.3-9.el9 baseos 38 k libpsl x86_64 0.21.1-5.el9 baseos 66 k libpwquality x86_64 1.4.4-8.el9 baseos 123 k libselinux x86_64 3.4-3.el9 baseos 88 k libsemanage x86_64 3.4-2.el9 baseos 121 k libsepol x86_64 3.4-1.1.el9 baseos 317 k libsigsegv x86_64 2.13-4.el9 baseos 30 k libsmartcols x86_64 2.37.4-9.el9 baseos 66 k libssh x86_64 0.9.6-3.el9 baseos 210 k libssh-config noarch 0.9.6-3.el9 baseos 11 k libstdc++ x86_64 11.3.1-2.1.el9 baseos 766 k libtasn1 x86_64 4.16.0-8.el9_1 baseos 77 k libunistring x86_64 0.9.10-15.el9 baseos 499 k libutempter x86_64 1.2.1-6.el9 baseos 30 k libuuid x86_64 2.37.4-9.el9 baseos 30 k libverto x86_64 0.3.2-3.el9 baseos 24 k libxcrypt x86_64 4.4.18-3.el9 baseos 120 k libxml2 x86_64 2.9.13-3.el9_1 baseos 752 k libzstd x86_64 1.5.1-2.el9 baseos 332 k lua-libs x86_64 5.4.4-2.el9_1 baseos 217 k lua-srpm-macros noarch 1-6.el9 appstream 10 k lz4-libs x86_64 1.9.3-5.el9 baseos 69 k mpfr x86_64 4.1.0-7.el9 baseos 329 k ncurses x86_64 6.2-8.20210508.el9 baseos 412 k ncurses-base noarch 6.2-8.20210508.el9 baseos 100 k ncurses-libs x86_64 6.2-8.20210508.el9 baseos 334 k ocaml-srpm-macros noarch 6-6.el9 appstream 9.1 k openblas-srpm-macros noarch 2-11.el9 appstream 8.6 k openldap x86_64 2.6.2-3.el9 baseos 287 k openssl x86_64 1:3.0.1-47.el9_1 baseos 1.2 M openssl-libs x86_64 1:3.0.1-47.el9_1 baseos 2.1 M p11-kit x86_64 0.24.1-2.el9 baseos 387 k p11-kit-trust x86_64 0.24.1-2.el9 baseos 148 k pam x86_64 1.5.1-12.el9 baseos 625 k pcre x86_64 8.44-3.el9.3 baseos 202 k pcre2 x86_64 10.40-2.el9 baseos 239 k pcre2-syntax noarch 10.40-2.el9 baseos 147 k perl-Carp noarch 1.50-460.el9 appstream 31 k perl-Class-Struct noarch 0.66-479.el9 appstream 32 k perl-Encode x86_64 4:3.08-462.el9 appstream 1.7 M perl-Errno x86_64 1.30-479.el9 appstream 25 k perl-Exporter noarch 5.74-461.el9 appstream 34 k perl-Fcntl x86_64 1.13-479.el9 appstream 32 k perl-File-Basename noarch 2.85-479.el9 appstream 27 k perl-File-Path noarch 2.18-4.el9 appstream 38 k perl-File-Temp noarch 1:0.231.100-4.el9 appstream 63 k perl-File-stat noarch 1.09-479.el9 appstream 27 k perl-Getopt-Long noarch 1:2.52-4.el9 appstream 64 k perl-Getopt-Std noarch 1.12-479.el9 appstream 26 k perl-HTTP-Tiny noarch 0.076-460.el9 appstream 58 k perl-IO x86_64 1.43-479.el9 appstream 103 k perl-IPC-Open3 noarch 1.21-479.el9 appstream 34 k perl-MIME-Base64 x86_64 3.16-4.el9 appstream 34 k perl-POSIX x86_64 1.94-479.el9 appstream 108 k perl-PathTools x86_64 3.78-461.el9 appstream 92 k perl-Pod-Escapes noarch 1:1.07-460.el9 appstream 22 k perl-Pod-Perldoc noarch 3.28.01-461.el9 appstream 92 k perl-Pod-Simple noarch 1:3.42-4.el9 appstream 229 k perl-Pod-Usage noarch 4:2.01-4.el9 appstream 43 k perl-Scalar-List-Utils x86_64 4:1.56-461.el9 appstream 77 k perl-SelectSaver noarch 1.02-479.el9 appstream 22 k perl-Socket x86_64 4:2.031-4.el9 appstream 58 k perl-Storable x86_64 1:3.21-460.el9 appstream 98 k perl-Symbol noarch 1.08-479.el9 appstream 24 k perl-Term-ANSIColor noarch 5.01-461.el9 appstream 51 k perl-Term-Cap noarch 1.17-460.el9 appstream 24 k perl-Text-ParseWords noarch 3.30-460.el9 appstream 18 k perl-Text-Tabs+Wrap noarch 2013.0523-460.el9 appstream 25 k perl-Time-Local noarch 2:1.300-7.el9 appstream 37 k perl-constant noarch 1.33-461.el9 appstream 25 k perl-if noarch 0.60.800-479.el9 appstream 24 k perl-interpreter x86_64 4:5.32.1-479.el9 appstream 83 k perl-libs x86_64 4:5.32.1-479.el9 appstream 2.2 M perl-mro x86_64 1.23-479.el9 appstream 40 k perl-overload noarch 1.31-479.el9 appstream 56 k perl-overloading noarch 0.02-479.el9 appstream 23 k perl-parent noarch 1:0.238-460.el9 appstream 16 k perl-podlators noarch 1:4.14-460.el9 appstream 118 k perl-srpm-macros noarch 1-41.el9 appstream 9.4 k perl-subs noarch 1.03-479.el9 appstream 22 k perl-vars noarch 1.05-479.el9 appstream 23 k pkgconf x86_64 1.7.3-9.el9 baseos 45 k pkgconf-m4 noarch 1.7.3-9.el9 baseos 16 k pkgconf-pkg-config x86_64 1.7.3-9.el9 baseos 12 k popt x86_64 1.18-8.el9 baseos 69 k publicsuffix-list-dafsa noarch 20210518-3.el9 baseos 59 k python-srpm-macros noarch 3.9-52.el9 appstream 24 k qt5-srpm-macros noarch 5.15.3-1.el9 appstream 9.9 k readline x86_64 8.1-4.el9 baseos 215 k rpm x86_64 4.16.1.3-19.el9_1 baseos 542 k rpm-build-libs x86_64 4.16.1.3-19.el9_1 baseos 92 k rpm-libs x86_64 4.16.1.3-19.el9_1 baseos 309 k rpmautospec-rpm-macros noarch 0.3.5-1.el9 epel 9.1 k rust-srpm-macros noarch 17-4.el9 appstream 11 k setup noarch 2.13.7-7.el9 baseos 150 k sqlite-libs x86_64 3.34.1-6.el9_1 baseos 622 k systemd-libs x86_64 250-12.el9_1.3 baseos 636 k tzdata noarch 2023c-1.el9 baseos 845 k util-linux-core x86_64 2.37.4-9.el9 baseos 465 k xz-libs x86_64 5.2.5-8.el9_0 baseos 94 k zip x86_64 3.0-33.el9 baseos 242 k zlib x86_64 1.2.11-35.el9_1 baseos 93 k zstd x86_64 1.5.1-2.el9 baseos 552 k Transaction Summary ================================================================================ Install 187 Packages Total download size: 66 M Installed size: 210 M Downloading Packages: (1/187): pkgconf-1.7.3-9.el9.x86_64.rpm 445 kB/s | 45 kB 00:00 (2/187): libpwquality-1.4.4-8.el9.x86_64.rpm 1.0 MB/s | 123 kB 00:00 (3/187): libutempter-1.2.1-6.el9.x86_64.rpm 201 kB/s | 30 kB 00:00 (4/187): pkgconf-m4-1.7.3-9.el9.noarch.rpm 263 kB/s | 16 kB 00:00 (5/187): lz4-libs-1.9.3-5.el9.x86_64.rpm 1.0 MB/s | 69 kB 00:00 (6/187): bzip2-1.0.8-8.el9.x86_64.rpm 820 kB/s | 60 kB 00:00 (7/187): libcap-2.48-8.el9.x86_64.rpm 1.1 MB/s | 76 kB 00:00 (8/187): ncurses-6.2-8.20210508.el9.x86_64.rpm 5.1 MB/s | 412 kB 00:00 (9/187): ed-1.14.2-12.el9.x86_64.rpm 1.2 MB/s | 78 kB 00:00 (10/187): cyrus-sasl-lib-2.1.27-20.el9.x86_64.r 9.1 MB/s | 774 kB 00:00 (11/187): zip-3.0-33.el9.x86_64.rpm 4.1 MB/s | 242 kB 00:00 (12/187): libacl-2.3.1-3.el9.x86_64.rpm 396 kB/s | 26 kB 00:00 (13/187): libcap-ng-0.8.2-7.el9.x86_64.rpm 617 kB/s | 36 kB 00:00 (14/187): libnghttp2-1.43.0-5.el9.x86_64.rpm 1.2 MB/s | 76 kB 00:00 (15/187): pcre-8.44-3.el9.3.x86_64.rpm 3.4 MB/s | 202 kB 00:00 (16/187): filesystem-3.16-2.el9.x86_64.rpm 36 MB/s | 4.7 MB 00:00 (17/187): info-6.7-15.el9.x86_64.rpm 3.5 MB/s | 228 kB 00:00 (18/187): libssh-0.9.6-3.el9.x86_64.rpm 1.7 MB/s | 210 kB 00:00 (19/187): unzip-6.0-56.el9.x86_64.rpm 3.0 MB/s | 186 kB 00:00 (20/187): groff-base-1.22.4-10.el9.x86_64.rpm 13 MB/s | 1.1 MB 00:00 (21/187): sed-4.8-9.el9.x86_64.rpm 4.3 MB/s | 309 kB 00:00 (22/187): grep-3.6-5.el9.x86_64.rpm 4.3 MB/s | 273 kB 00:00 (23/187): ncurses-libs-6.2-8.20210508.el9.x86_6 4.1 MB/s | 334 kB 00:00 (24/187): libunistring-0.9.10-15.el9.x86_64.rpm 5.5 MB/s | 499 kB 00:00 (25/187): basesystem-11-13.el9.noarch.rpm 123 kB/s | 8.0 kB 00:00 (26/187): libbrotli-1.0.9-6.el9.x86_64.rpm 5.0 MB/s | 317 kB 00:00 (27/187): libverto-0.3.2-3.el9.x86_64.rpm 392 kB/s | 24 kB 00:00 (28/187): ncurses-base-6.2-8.20210508.el9.noarc 1.7 MB/s | 100 kB 00:00 (29/187): libxcrypt-4.4.18-3.el9.x86_64.rpm 1.9 MB/s | 120 kB 00:00 (30/187): keyutils-libs-1.6.1-4.el9.x86_64.rpm 615 kB/s | 34 kB 00:00 (31/187): mpfr-4.1.0-7.el9.x86_64.rpm 4.7 MB/s | 329 kB 00:00 (32/187): popt-1.18-8.el9.x86_64.rpm 1.2 MB/s | 69 kB 00:00 (33/187): libssh-config-0.9.6-3.el9.noarch.rpm 37 kB/s | 11 kB 00:00 (34/187): readline-8.1-4.el9.x86_64.rpm 3.5 MB/s | 215 kB 00:00 (35/187): cracklib-2.9.6-27.el9.x86_64.rpm 1.5 MB/s | 99 kB 00:00 (36/187): libidn2-2.3.0-7.el9.x86_64.rpm 1.7 MB/s | 105 kB 00:00 (37/187): libevent-2.1.12-6.el9.x86_64.rpm 4.0 MB/s | 268 kB 00:00 (38/187): libgpg-error-1.42-5.el9.x86_64.rpm 2.4 MB/s | 220 kB 00:00 (39/187): libffi-3.4.2-7.el9.x86_64.rpm 645 kB/s | 40 kB 00:00 (40/187): libzstd-1.5.1-2.el9.x86_64.rpm 5.5 MB/s | 332 kB 00:00 (41/187): p11-kit-0.24.1-2.el9.x86_64.rpm 4.5 MB/s | 387 kB 00:00 (42/187): libpsl-0.21.1-5.el9.x86_64.rpm 1.0 MB/s | 66 kB 00:00 (43/187): publicsuffix-list-dafsa-20210518-3.el 927 kB/s | 59 kB 00:00 (44/187): gmp-6.2.0-10.el9.x86_64.rpm 5.3 MB/s | 320 kB 00:00 (45/187): libdb-5.3.28-53.el9.x86_64.rpm 11 MB/s | 740 kB 00:00 (46/187): libeconf-0.4.1-2.el9.x86_64.rpm 397 kB/s | 31 kB 00:00 (47/187): libsigsegv-2.13-4.el9.x86_64.rpm 525 kB/s | 30 kB 00:00 (48/187): libattr-2.5.1-3.el9.x86_64.rpm 276 kB/s | 20 kB 00:00 (49/187): alternatives-1.20-2.el9.x86_64.rpm 396 kB/s | 40 kB 00:00 (50/187): bzip2-libs-1.0.8-8.el9.x86_64.rpm 726 kB/s | 42 kB 00:00 (51/187): libpkgconf-1.7.3-9.el9.x86_64.rpm 596 kB/s | 38 kB 00:00 (52/187): findutils-4.8.0-5.el9.x86_64.rpm 8.3 MB/s | 552 kB 00:00 (53/187): cpio-2.13-16.el9.x86_64.rpm 3.5 MB/s | 279 kB 00:00 (54/187): pkgconf-pkg-config-1.7.3-9.el9.x86_64 196 kB/s | 12 kB 00:00 (55/187): gdbm-libs-1.19-4.el9.x86_64.rpm 862 kB/s | 56 kB 00:00 (56/187): coreutils-8.32-32.el9.x86_64.rpm 14 MB/s | 1.2 MB 00:00 (57/187): libsmartcols-2.37.4-9.el9.x86_64.rpm 1.2 MB/s | 66 kB 00:00 (58/187): ca-certificates-2022.2.54-90.2.el9_0. 12 MB/s | 835 kB 00:00 (59/187): libgcc-11.3.1-2.1.el9.x86_64.rpm 1.9 MB/s | 119 kB 00:00 (60/187): binutils-2.35.2-24.el9.x86_64.rpm 46 MB/s | 4.6 MB 00:00 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perl-Carp-1.50-460.el9.noarch.rpm 526 kB/s | 31 kB 00:00 (177/187): go-srpm-macros-3.0.9-9.el9.noarch.rp 538 kB/s | 28 kB 00:00 (178/187): perl-PathTools-3.78-461.el9.x86_64.r 1.4 MB/s | 92 kB 00:00 (179/187): qt5-srpm-macros-5.15.3-1.el9.noarch. 143 kB/s | 9.9 kB 00:00 (180/187): redhat-rpm-config-196-1.el9.noarch.r 1.3 MB/s | 77 kB 00:00 (181/187): gdb-minimal-10.2-10.el9.x86_64.rpm 41 MB/s | 3.5 MB 00:00 (182/187): rpm-build-4.16.1.3-19.el9_1.x86_64.r 1.6 MB/s | 106 kB 00:00 (183/187): ansible-srpm-macros-1-8.1.el9.noarch 129 kB/s | 8.5 kB 00:00 (184/187): fpc-srpm-macros-1.3-7.el9.noarch.rpm 126 kB/s | 7.5 kB 00:00 (185/187): go-srpm-macros-epel-1-8.el9.noarch.r 673 kB/s | 22 kB 00:00 (186/187): epel-rpm-macros-9-11.el9.noarch.rpm 169 kB/s | 16 kB 00:00 (187/187): rpmautospec-rpm-macros-0.3.5-1.el9.n 302 kB/s | 9.1 kB 00:00 -------------------------------------------------------------------------------- Total 13 MB/s | 66 MB 00:04 Red Hat Enterprise Linux - BaseOS 3.5 MB/s | 3.6 kB 00:00 Importing GPG key 0xFD431D51: Userid : "Red Hat, Inc. (release key 2) " Fingerprint: 567E 347A D004 4ADE 55BA 8A5F 199E 2F91 FD43 1D51 From : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release Key imported successfully Importing GPG key 0x5A6340B3: Userid : "Red Hat, Inc. (auxiliary key 3) " Fingerprint: 7E46 2425 8C40 6535 D56D 6F13 5054 E4A4 5A63 40B3 From : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release Key imported successfully Extra Packages for Enterprise Linux 9 - x86_64 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0x3228467C: Userid : "Fedora (epel9) " Fingerprint: FF8A D134 4597 106E CE81 3B91 8A38 72BF 3228 467C From : /usr/share/distribution-gpg-keys/epel/RPM-GPG-KEY-EPEL-9 Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.16-2.el9.x86_64 1/1 Preparing : 1/1 Installing : libgcc-11.3.1-2.1.el9.x86_64 1/187 Running scriptlet: libgcc-11.3.1-2.1.el9.x86_64 1/187 Installing : crypto-policies-20220815-1.git0fbe86f.el9.noarch 2/187 Running scriptlet: crypto-policies-20220815-1.git0fbe86f.el9.noarch 2/187 Installing : redhat-release-9.1-1.9.el9.x86_64 3/187 Installing : setup-2.13.7-7.el9.noarch 4/187 warning: /etc/hosts created as /etc/hosts.rpmnew Running scriptlet: setup-2.13.7-7.el9.noarch 4/187 Installing : filesystem-3.16-2.el9.x86_64 5/187 Installing : basesystem-11-13.el9.noarch 6/187 Installing : fpc-srpm-macros-1.3-7.el9.noarch 7/187 Installing : ansible-srpm-macros-1-8.1.el9.noarch 8/187 Installing : qt5-srpm-macros-5.15.3-1.el9.noarch 9/187 Installing : ocaml-srpm-macros-6-6.el9.noarch 10/187 Installing : openblas-srpm-macros-2-11.el9.noarch 11/187 Installing : perl-srpm-macros-1-41.el9.noarch 12/187 Installing : ghc-srpm-macros-1.5.0-6.el9.noarch 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perl-Term-Cap-1.17-460.el9.noarch 82/187 Installing : perl-SelectSaver-1.02-479.el9.noarch 83/187 Installing : perl-Symbol-1.08-479.el9.noarch 84/187 Installing : perl-Socket-4:2.031-4.el9.x86_64 85/187 Installing : perl-File-stat-1.09-479.el9.noarch 86/187 Installing : perl-Pod-Perldoc-3.28.01-461.el9.noarch 87/187 Installing : perl-podlators-1:4.14-460.el9.noarch 88/187 Installing : perl-mro-1.23-479.el9.x86_64 89/187 Installing : perl-Fcntl-1.13-479.el9.x86_64 90/187 Installing : perl-Text-ParseWords-3.30-460.el9.noarch 91/187 Installing : perl-overloading-0.02-479.el9.noarch 92/187 Installing : perl-IO-1.43-479.el9.x86_64 93/187 Installing : perl-Pod-Usage-4:2.01-4.el9.noarch 94/187 Installing : perl-parent-1:0.238-460.el9.noarch 95/187 Installing : perl-vars-1.05-479.el9.noarch 96/187 Installing : perl-File-Basename-2.85-479.el9.noarch 97/187 Installing : perl-MIME-Base64-3.16-4.el9.x86_64 98/187 Installing : perl-Getopt-Std-1.12-479.el9.noarch 99/187 Installing : perl-Scalar-List-Utils-4:1.56-461.el9.x86_64 100/187 Installing : perl-constant-1.33-461.el9.noarch 101/187 Installing : perl-overload-1.31-479.el9.noarch 102/187 Installing : perl-Errno-1.30-479.el9.x86_64 103/187 Installing : perl-Storable-1:3.21-460.el9.x86_64 104/187 Installing : perl-Getopt-Long-1:2.52-4.el9.noarch 105/187 Installing : perl-Exporter-5.74-461.el9.noarch 106/187 Installing : perl-Carp-1.50-460.el9.noarch 107/187 Installing : perl-PathTools-3.78-461.el9.x86_64 108/187 Installing : perl-Encode-4:3.08-462.el9.x86_64 109/187 Installing : perl-libs-4:5.32.1-479.el9.x86_64 110/187 Installing : perl-interpreter-4:5.32.1-479.el9.x86_64 111/187 Installing : kernel-srpm-macros-1.0-11.el9.noarch 112/187 Installing : libnghttp2-1.43.0-5.el9.x86_64 113/187 Installing : pcre-8.44-3.el9.3.x86_64 114/187 Installing : grep-3.6-5.el9.x86_64 115/187 Installing : xz-5.2.5-8.el9_0.x86_64 116/187 Installing : libbrotli-1.0.9-6.el9.x86_64 117/187 Installing : libverto-0.3.2-3.el9.x86_64 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gzip-1.12-1.el9.x86_64 150/187 Installing : cracklib-2.9.6-27.el9.x86_64 151/187 Installing : cracklib-dicts-2.9.6-27.el9.x86_64 152/187 Installing : util-linux-core-2.37.4-9.el9.x86_64 153/187 Running scriptlet: util-linux-core-2.37.4-9.el9.x86_64 153/187 Installing : cyrus-sasl-lib-2.1.27-20.el9.x86_64 154/187 Installing : libfdisk-2.37.4-9.el9.x86_64 155/187 Installing : openssl-1:3.0.1-47.el9_1.x86_64 156/187 Installing : pam-1.5.1-12.el9.x86_64 157/187 Installing : libpwquality-1.4.4-8.el9.x86_64 158/187 Installing : libevent-2.1.12-6.el9.x86_64 159/187 Installing : openldap-2.6.2-3.el9.x86_64 160/187 Installing : libarchive-3.5.3-3.el9.x86_64 161/187 Installing : libssh-config-0.9.6-3.el9.noarch 162/187 Installing : libssh-0.9.6-3.el9.x86_64 163/187 Installing : libcurl-7.76.1-19.el9_1.2.x86_64 164/187 Installing : elfutils-debuginfod-client-0.187-5.el9.x86_64 165/187 Installing : binutils-gold-2.35.2-24.el9.x86_64 166/187 Installing : binutils-2.35.2-24.el9.x86_64 167/187 Running scriptlet: binutils-2.35.2-24.el9.x86_64 167/187 Installing : elfutils-0.187-5.el9.x86_64 168/187 Installing : gdb-minimal-10.2-10.el9.x86_64 169/187 Installing : curl-7.76.1-19.el9_1.2.x86_64 170/187 Installing : rpm-libs-4.16.1.3-19.el9_1.x86_64 171/187 Installing : rpm-4.16.1.3-19.el9_1.x86_64 172/187 Installing : lua-srpm-macros-1-6.el9.noarch 173/187 Installing : efi-srpm-macros-6-2.el9_0.noarch 174/187 Installing : python-srpm-macros-3.9-52.el9.noarch 175/187 Installing : fonts-srpm-macros-1:2.0.5-7.el9.1.noarch 176/187 Installing : go-srpm-macros-3.0.9-9.el9.noarch 177/187 Installing : redhat-rpm-config-196-1.el9.noarch 178/187 Installing : go-srpm-macros-epel-1-8.el9.noarch 179/187 Installing : rpmautospec-rpm-macros-0.3.5-1.el9.noarch 180/187 Installing : rpm-build-libs-4.16.1.3-19.el9_1.x86_64 181/187 Installing : pkgconf-m4-1.7.3-9.el9.noarch 182/187 Installing : pkgconf-pkg-config-1.7.3-9.el9.x86_64 183/187 Installing : rpm-build-4.16.1.3-19.el9_1.x86_64 184/187 Installing : epel-rpm-macros-9-11.el9.noarch 185/187 Installing : util-linux-2.37.4-9.el9.x86_64 186/187 Installing : which-2.21-28.el9.x86_64 187/187 Running scriptlet: filesystem-3.16-2.el9.x86_64 187/187 Running scriptlet: ca-certificates-2022.2.54-90.2.el9_0.noarch 187/187 Running scriptlet: rpm-4.16.1.3-19.el9_1.x86_64 187/187 Running scriptlet: which-2.21-28.el9.x86_64 187/187 Verifying : pkgconf-1.7.3-9.el9.x86_64 1/187 Verifying : libpwquality-1.4.4-8.el9.x86_64 2/187 Verifying : libutempter-1.2.1-6.el9.x86_64 3/187 Verifying : pkgconf-m4-1.7.3-9.el9.noarch 4/187 Verifying : lz4-libs-1.9.3-5.el9.x86_64 5/187 Verifying : bzip2-1.0.8-8.el9.x86_64 6/187 Verifying : libcap-2.48-8.el9.x86_64 7/187 Verifying : ncurses-6.2-8.20210508.el9.x86_64 8/187 Verifying : ed-1.14.2-12.el9.x86_64 9/187 Verifying : cyrus-sasl-lib-2.1.27-20.el9.x86_64 10/187 Verifying : zip-3.0-33.el9.x86_64 11/187 Verifying : libacl-2.3.1-3.el9.x86_64 12/187 Verifying : libcap-ng-0.8.2-7.el9.x86_64 13/187 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Verifying : diffutils-3.7-12.el9.x86_64 75/187 Verifying : elfutils-0.187-5.el9.x86_64 76/187 Verifying : gawk-5.1.0-6.el9.x86_64 77/187 Verifying : setup-2.13.7-7.el9.noarch 78/187 Verifying : libcom_err-1.46.5-3.el9.x86_64 79/187 Verifying : libselinux-3.4-3.el9.x86_64 80/187 Verifying : pcre2-10.40-2.el9.x86_64 81/187 Verifying : glibc-minimal-langpack-2.34-40.el9_1.1.x86_64 82/187 Verifying : openssl-libs-1:3.0.1-47.el9_1.x86_64 83/187 Verifying : tar-2:1.34-6.el9_1.x86_64 84/187 Verifying : libmount-2.37.4-9.el9.x86_64 85/187 Verifying : rpm-build-libs-4.16.1.3-19.el9_1.x86_64 86/187 Verifying : libuuid-2.37.4-9.el9.x86_64 87/187 Verifying : systemd-libs-250-12.el9_1.3.x86_64 88/187 Verifying : redhat-release-9.1-1.9.el9.x86_64 89/187 Verifying : glibc-common-2.34-40.el9_1.1.x86_64 90/187 Verifying : krb5-libs-1.19.1-24.el9_1.x86_64 91/187 Verifying : openssl-1:3.0.1-47.el9_1.x86_64 92/187 Verifying : file-libs-5.39-10.el9.x86_64 93/187 Verifying : openldap-2.6.2-3.el9.x86_64 94/187 Verifying : libtasn1-4.16.0-8.el9_1.x86_64 95/187 Verifying : audit-libs-3.0.7-103.el9.x86_64 96/187 Verifying : bash-5.1.8-6.el9_1.x86_64 97/187 Verifying : zlib-1.2.11-35.el9_1.x86_64 98/187 Verifying : libsemanage-3.4-2.el9.x86_64 99/187 Verifying : util-linux-2.37.4-9.el9.x86_64 100/187 Verifying : glibc-gconv-extra-2.34-40.el9_1.1.x86_64 101/187 Verifying : elfutils-default-yama-scope-0.187-5.el9.noarch 102/187 Verifying : libarchive-3.5.3-3.el9.x86_64 103/187 Verifying : elfutils-libelf-0.187-5.el9.x86_64 104/187 Verifying : crypto-policies-20220815-1.git0fbe86f.el9.noarch 105/187 Verifying : tzdata-2023c-1.el9.noarch 106/187 Verifying : libblkid-2.37.4-9.el9.x86_64 107/187 Verifying : file-5.39-10.el9.x86_64 108/187 Verifying : libsepol-3.4-1.1.el9.x86_64 109/187 Verifying : gzip-1.12-1.el9.x86_64 110/187 Verifying : glibc-2.34-40.el9_1.1.x86_64 111/187 Verifying : sqlite-libs-3.34.1-6.el9_1.x86_64 112/187 Verifying : lua-libs-5.4.4-2.el9_1.x86_64 113/187 Verifying : elfutils-libs-0.187-5.el9.x86_64 114/187 Verifying : libstdc++-11.3.1-2.1.el9.x86_64 115/187 Verifying : coreutils-common-8.32-32.el9.x86_64 116/187 Verifying : rpm-libs-4.16.1.3-19.el9_1.x86_64 117/187 Verifying : libxml2-2.9.13-3.el9_1.x86_64 118/187 Verifying : rpm-4.16.1.3-19.el9_1.x86_64 119/187 Verifying : libcurl-7.76.1-19.el9_1.2.x86_64 120/187 Verifying : curl-7.76.1-19.el9_1.2.x86_64 121/187 Verifying : libgcrypt-1.10.0-10.el9_1.x86_64 122/187 Verifying : perl-SelectSaver-1.02-479.el9.noarch 123/187 Verifying : perl-subs-1.03-479.el9.noarch 124/187 Verifying : lua-srpm-macros-1-6.el9.noarch 125/187 Verifying : perl-File-stat-1.09-479.el9.noarch 126/187 Verifying : rust-srpm-macros-17-4.el9.noarch 127/187 Verifying : ghc-srpm-macros-1.5.0-6.el9.noarch 128/187 Verifying : perl-Pod-Simple-1:3.42-4.el9.noarch 129/187 Verifying : perl-File-Basename-2.85-479.el9.noarch 130/187 Verifying : perl-Term-Cap-1.17-460.el9.noarch 131/187 Verifying : perl-Encode-4:3.08-462.el9.x86_64 132/187 Verifying : perl-Time-Local-2:1.300-7.el9.noarch 133/187 Verifying : perl-IPC-Open3-1.21-479.el9.noarch 134/187 Verifying : perl-libs-4:5.32.1-479.el9.x86_64 135/187 Verifying : perl-vars-1.05-479.el9.noarch 136/187 Verifying : perl-Pod-Escapes-1:1.07-460.el9.noarch 137/187 Verifying : python-srpm-macros-3.9-52.el9.noarch 138/187 Verifying : perl-podlators-1:4.14-460.el9.noarch 139/187 Verifying : perl-Storable-1:3.21-460.el9.x86_64 140/187 Verifying : perl-srpm-macros-1-41.el9.noarch 141/187 Verifying : perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch 142/187 Verifying : dwz-0.14-3.el9.x86_64 143/187 Verifying : perl-MIME-Base64-3.16-4.el9.x86_64 144/187 Verifying : perl-File-Temp-1:0.231.100-4.el9.noarch 145/187 Verifying : perl-Exporter-5.74-461.el9.noarch 146/187 Verifying : perl-Symbol-1.08-479.el9.noarch 147/187 Verifying : perl-parent-1:0.238-460.el9.noarch 148/187 Verifying : perl-Getopt-Long-1:2.52-4.el9.noarch 149/187 Verifying : perl-Socket-4:2.031-4.el9.x86_64 150/187 Verifying : kernel-srpm-macros-1.0-11.el9.noarch 151/187 Verifying : perl-Getopt-Std-1.12-479.el9.noarch 152/187 Verifying : openblas-srpm-macros-2-11.el9.noarch 153/187 Verifying : perl-Term-ANSIColor-5.01-461.el9.noarch 154/187 Verifying : perl-POSIX-1.94-479.el9.x86_64 155/187 Verifying : perl-Scalar-List-Utils-4:1.56-461.el9.x86_64 156/187 Verifying : perl-overload-1.31-479.el9.noarch 157/187 Verifying : perl-constant-1.33-461.el9.noarch 158/187 Verifying : perl-File-Path-2.18-4.el9.noarch 159/187 Verifying : perl-if-0.60.800-479.el9.noarch 160/187 Verifying : efi-srpm-macros-6-2.el9_0.noarch 161/187 Verifying : perl-Text-ParseWords-3.30-460.el9.noarch 162/187 Verifying : perl-HTTP-Tiny-0.076-460.el9.noarch 163/187 Verifying : perl-Pod-Usage-4:2.01-4.el9.noarch 164/187 Verifying : patch-2.7.6-16.el9.x86_64 165/187 Verifying : perl-Pod-Perldoc-3.28.01-461.el9.noarch 166/187 Verifying : perl-Class-Struct-0.66-479.el9.noarch 167/187 Verifying : perl-overloading-0.02-479.el9.noarch 168/187 Verifying : perl-interpreter-4:5.32.1-479.el9.x86_64 169/187 Verifying : perl-IO-1.43-479.el9.x86_64 170/187 Verifying : perl-Fcntl-1.13-479.el9.x86_64 171/187 Verifying : fonts-srpm-macros-1:2.0.5-7.el9.1.noarch 172/187 Verifying : ocaml-srpm-macros-6-6.el9.noarch 173/187 Verifying : perl-mro-1.23-479.el9.x86_64 174/187 Verifying : perl-Errno-1.30-479.el9.x86_64 175/187 Verifying : perl-Carp-1.50-460.el9.noarch 176/187 Verifying : go-srpm-macros-3.0.9-9.el9.noarch 177/187 Verifying : perl-PathTools-3.78-461.el9.x86_64 178/187 Verifying : qt5-srpm-macros-5.15.3-1.el9.noarch 179/187 Verifying : gdb-minimal-10.2-10.el9.x86_64 180/187 Verifying : redhat-rpm-config-196-1.el9.noarch 181/187 Verifying : rpm-build-4.16.1.3-19.el9_1.x86_64 182/187 Verifying : ansible-srpm-macros-1-8.1.el9.noarch 183/187 Verifying : epel-rpm-macros-9-11.el9.noarch 184/187 Verifying : fpc-srpm-macros-1.3-7.el9.noarch 185/187 Verifying : go-srpm-macros-epel-1-8.el9.noarch 186/187 Verifying : rpmautospec-rpm-macros-0.3.5-1.el9.noarch 187/187 Installed products updated. Installed: alternatives-1.20-2.el9.x86_64 ansible-srpm-macros-1-8.1.el9.noarch audit-libs-3.0.7-103.el9.x86_64 basesystem-11-13.el9.noarch bash-5.1.8-6.el9_1.x86_64 binutils-2.35.2-24.el9.x86_64 binutils-gold-2.35.2-24.el9.x86_64 bzip2-1.0.8-8.el9.x86_64 bzip2-libs-1.0.8-8.el9.x86_64 ca-certificates-2022.2.54-90.2.el9_0.noarch coreutils-8.32-32.el9.x86_64 coreutils-common-8.32-32.el9.x86_64 cpio-2.13-16.el9.x86_64 cracklib-2.9.6-27.el9.x86_64 cracklib-dicts-2.9.6-27.el9.x86_64 crypto-policies-20220815-1.git0fbe86f.el9.noarch curl-7.76.1-19.el9_1.2.x86_64 cyrus-sasl-lib-2.1.27-20.el9.x86_64 diffutils-3.7-12.el9.x86_64 dwz-0.14-3.el9.x86_64 ed-1.14.2-12.el9.x86_64 efi-srpm-macros-6-2.el9_0.noarch elfutils-0.187-5.el9.x86_64 elfutils-debuginfod-client-0.187-5.el9.x86_64 elfutils-default-yama-scope-0.187-5.el9.noarch elfutils-libelf-0.187-5.el9.x86_64 elfutils-libs-0.187-5.el9.x86_64 epel-rpm-macros-9-11.el9.noarch file-5.39-10.el9.x86_64 file-libs-5.39-10.el9.x86_64 filesystem-3.16-2.el9.x86_64 findutils-1:4.8.0-5.el9.x86_64 fonts-srpm-macros-1:2.0.5-7.el9.1.noarch fpc-srpm-macros-1.3-7.el9.noarch gawk-5.1.0-6.el9.x86_64 gdb-minimal-10.2-10.el9.x86_64 gdbm-libs-1:1.19-4.el9.x86_64 ghc-srpm-macros-1.5.0-6.el9.noarch glibc-2.34-40.el9_1.1.x86_64 glibc-common-2.34-40.el9_1.1.x86_64 glibc-gconv-extra-2.34-40.el9_1.1.x86_64 glibc-minimal-langpack-2.34-40.el9_1.1.x86_64 gmp-1:6.2.0-10.el9.x86_64 go-srpm-macros-3.0.9-9.el9.noarch go-srpm-macros-epel-1-8.el9.noarch grep-3.6-5.el9.x86_64 groff-base-1.22.4-10.el9.x86_64 gzip-1.12-1.el9.x86_64 info-6.7-15.el9.x86_64 kernel-srpm-macros-1.0-11.el9.noarch keyutils-libs-1.6.1-4.el9.x86_64 krb5-libs-1.19.1-24.el9_1.x86_64 libacl-2.3.1-3.el9.x86_64 libarchive-3.5.3-3.el9.x86_64 libattr-2.5.1-3.el9.x86_64 libblkid-2.37.4-9.el9.x86_64 libbrotli-1.0.9-6.el9.x86_64 libcap-2.48-8.el9.x86_64 libcap-ng-0.8.2-7.el9.x86_64 libcom_err-1.46.5-3.el9.x86_64 libcurl-7.76.1-19.el9_1.2.x86_64 libdb-5.3.28-53.el9.x86_64 libeconf-0.4.1-2.el9.x86_64 libevent-2.1.12-6.el9.x86_64 libfdisk-2.37.4-9.el9.x86_64 libffi-3.4.2-7.el9.x86_64 libgcc-11.3.1-2.1.el9.x86_64 libgcrypt-1.10.0-10.el9_1.x86_64 libgomp-11.3.1-2.1.el9.x86_64 libgpg-error-1.42-5.el9.x86_64 libidn2-2.3.0-7.el9.x86_64 libmount-2.37.4-9.el9.x86_64 libnghttp2-1.43.0-5.el9.x86_64 libpkgconf-1.7.3-9.el9.x86_64 libpsl-0.21.1-5.el9.x86_64 libpwquality-1.4.4-8.el9.x86_64 libselinux-3.4-3.el9.x86_64 libsemanage-3.4-2.el9.x86_64 libsepol-3.4-1.1.el9.x86_64 libsigsegv-2.13-4.el9.x86_64 libsmartcols-2.37.4-9.el9.x86_64 libssh-0.9.6-3.el9.x86_64 libssh-config-0.9.6-3.el9.noarch libstdc++-11.3.1-2.1.el9.x86_64 libtasn1-4.16.0-8.el9_1.x86_64 libunistring-0.9.10-15.el9.x86_64 libutempter-1.2.1-6.el9.x86_64 libuuid-2.37.4-9.el9.x86_64 libverto-0.3.2-3.el9.x86_64 libxcrypt-4.4.18-3.el9.x86_64 libxml2-2.9.13-3.el9_1.x86_64 libzstd-1.5.1-2.el9.x86_64 lua-libs-5.4.4-2.el9_1.x86_64 lua-srpm-macros-1-6.el9.noarch lz4-libs-1.9.3-5.el9.x86_64 mpfr-4.1.0-7.el9.x86_64 ncurses-6.2-8.20210508.el9.x86_64 ncurses-base-6.2-8.20210508.el9.noarch ncurses-libs-6.2-8.20210508.el9.x86_64 ocaml-srpm-macros-6-6.el9.noarch openblas-srpm-macros-2-11.el9.noarch openldap-2.6.2-3.el9.x86_64 openssl-1:3.0.1-47.el9_1.x86_64 openssl-libs-1:3.0.1-47.el9_1.x86_64 p11-kit-0.24.1-2.el9.x86_64 p11-kit-trust-0.24.1-2.el9.x86_64 pam-1.5.1-12.el9.x86_64 patch-2.7.6-16.el9.x86_64 pcre-8.44-3.el9.3.x86_64 pcre2-10.40-2.el9.x86_64 pcre2-syntax-10.40-2.el9.noarch perl-Carp-1.50-460.el9.noarch perl-Class-Struct-0.66-479.el9.noarch perl-Encode-4:3.08-462.el9.x86_64 perl-Errno-1.30-479.el9.x86_64 perl-Exporter-5.74-461.el9.noarch perl-Fcntl-1.13-479.el9.x86_64 perl-File-Basename-2.85-479.el9.noarch perl-File-Path-2.18-4.el9.noarch perl-File-Temp-1:0.231.100-4.el9.noarch perl-File-stat-1.09-479.el9.noarch perl-Getopt-Long-1:2.52-4.el9.noarch perl-Getopt-Std-1.12-479.el9.noarch perl-HTTP-Tiny-0.076-460.el9.noarch perl-IO-1.43-479.el9.x86_64 perl-IPC-Open3-1.21-479.el9.noarch perl-MIME-Base64-3.16-4.el9.x86_64 perl-POSIX-1.94-479.el9.x86_64 perl-PathTools-3.78-461.el9.x86_64 perl-Pod-Escapes-1:1.07-460.el9.noarch perl-Pod-Perldoc-3.28.01-461.el9.noarch perl-Pod-Simple-1:3.42-4.el9.noarch perl-Pod-Usage-4:2.01-4.el9.noarch perl-Scalar-List-Utils-4:1.56-461.el9.x86_64 perl-SelectSaver-1.02-479.el9.noarch perl-Socket-4:2.031-4.el9.x86_64 perl-Storable-1:3.21-460.el9.x86_64 perl-Symbol-1.08-479.el9.noarch perl-Term-ANSIColor-5.01-461.el9.noarch perl-Term-Cap-1.17-460.el9.noarch perl-Text-ParseWords-3.30-460.el9.noarch perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch perl-Time-Local-2:1.300-7.el9.noarch perl-constant-1.33-461.el9.noarch perl-if-0.60.800-479.el9.noarch perl-interpreter-4:5.32.1-479.el9.x86_64 perl-libs-4:5.32.1-479.el9.x86_64 perl-mro-1.23-479.el9.x86_64 perl-overload-1.31-479.el9.noarch perl-overloading-0.02-479.el9.noarch perl-parent-1:0.238-460.el9.noarch perl-podlators-1:4.14-460.el9.noarch perl-srpm-macros-1-41.el9.noarch perl-subs-1.03-479.el9.noarch perl-vars-1.05-479.el9.noarch pkgconf-1.7.3-9.el9.x86_64 pkgconf-m4-1.7.3-9.el9.noarch pkgconf-pkg-config-1.7.3-9.el9.x86_64 popt-1.18-8.el9.x86_64 publicsuffix-list-dafsa-20210518-3.el9.noarch python-srpm-macros-3.9-52.el9.noarch qt5-srpm-macros-5.15.3-1.el9.noarch readline-8.1-4.el9.x86_64 redhat-release-9.1-1.9.el9.x86_64 redhat-rpm-config-196-1.el9.noarch rpm-4.16.1.3-19.el9_1.x86_64 rpm-build-4.16.1.3-19.el9_1.x86_64 rpm-build-libs-4.16.1.3-19.el9_1.x86_64 rpm-libs-4.16.1.3-19.el9_1.x86_64 rpmautospec-rpm-macros-0.3.5-1.el9.noarch rust-srpm-macros-17-4.el9.noarch sed-4.8-9.el9.x86_64 setup-2.13.7-7.el9.noarch shadow-utils-2:4.9-5.el9.x86_64 sqlite-libs-3.34.1-6.el9_1.x86_64 systemd-libs-250-12.el9_1.3.x86_64 tar-2:1.34-6.el9_1.x86_64 tzdata-2023c-1.el9.noarch unzip-6.0-56.el9.x86_64 util-linux-2.37.4-9.el9.x86_64 util-linux-core-2.37.4-9.el9.x86_64 which-2.21-28.el9.x86_64 xz-5.2.5-8.el9_0.x86_64 xz-libs-5.2.5-8.el9_0.x86_64 zip-3.0-33.el9.x86_64 zlib-1.2.11-35.el9_1.x86_64 zstd-1.5.1-2.el9.x86_64 Complete! Finish: dnf install Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: perl-POSIX-1.94-479.el9.x86_64 elfutils-default-yama-scope-0.187-5.el9.noarch perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch perl-Pod-Perldoc-3.28.01-461.el9.noarch perl-Symbol-1.08-479.el9.noarch perl-Getopt-Std-1.12-479.el9.noarch kernel-srpm-macros-1.0-11.el9.noarch fonts-srpm-macros-2.0.5-7.el9.1.noarch libxcrypt-4.4.18-3.el9.x86_64 patch-2.7.6-16.el9.x86_64 info-6.7-15.el9.x86_64 libutempter-1.2.1-6.el9.x86_64 basesystem-11-13.el9.noarch openssl-libs-3.0.1-47.el9_1.x86_64 go-srpm-macros-epel-1-8.el9.noarch systemd-libs-250-12.el9_1.3.x86_64 perl-srpm-macros-1-41.el9.noarch cracklib-dicts-2.9.6-27.el9.x86_64 perl-HTTP-Tiny-0.076-460.el9.noarch python-srpm-macros-3.9-52.el9.noarch perl-podlators-4.14-460.el9.noarch rpm-4.16.1.3-19.el9_1.x86_64 elfutils-libelf-0.187-5.el9.x86_64 perl-Storable-3.21-460.el9.x86_64 mpfr-4.1.0-7.el9.x86_64 perl-Term-ANSIColor-5.01-461.el9.noarch openldap-2.6.2-3.el9.x86_64 perl-File-Path-2.18-4.el9.noarch file-5.39-10.el9.x86_64 p11-kit-trust-0.24.1-2.el9.x86_64 libblkid-2.37.4-9.el9.x86_64 libssh-config-0.9.6-3.el9.noarch perl-Errno-1.30-479.el9.x86_64 qt5-srpm-macros-5.15.3-1.el9.noarch perl-interpreter-5.32.1-479.el9.x86_64 ncurses-libs-6.2-8.20210508.el9.x86_64 libgcrypt-1.10.0-10.el9_1.x86_64 libunistring-0.9.10-15.el9.x86_64 perl-File-Temp-0.231.100-4.el9.noarch libffi-3.4.2-7.el9.x86_64 redhat-rpm-config-196-1.el9.noarch groff-base-1.22.4-10.el9.x86_64 gpg-pubkey-5a6340b3-6229229e bash-5.1.8-6.el9_1.x86_64 libselinux-3.4-3.el9.x86_64 pkgconf-m4-1.7.3-9.el9.noarch krb5-libs-1.19.1-24.el9_1.x86_64 perl-IO-1.43-479.el9.x86_64 sqlite-libs-3.34.1-6.el9_1.x86_64 perl-IPC-Open3-1.21-479.el9.noarch rpmautospec-rpm-macros-0.3.5-1.el9.noarch cracklib-2.9.6-27.el9.x86_64 libxml2-2.9.13-3.el9_1.x86_64 libacl-2.3.1-3.el9.x86_64 pkgconf-1.7.3-9.el9.x86_64 libmount-2.37.4-9.el9.x86_64 openblas-srpm-macros-2-11.el9.noarch tzdata-2023c-1.el9.noarch zip-3.0-33.el9.x86_64 perl-Exporter-5.74-461.el9.noarch libgpg-error-1.42-5.el9.x86_64 libpsl-0.21.1-5.el9.x86_64 libsepol-3.4-1.1.el9.x86_64 fpc-srpm-macros-1.3-7.el9.noarch rpm-build-libs-4.16.1.3-19.el9_1.x86_64 libfdisk-2.37.4-9.el9.x86_64 efi-srpm-macros-6-2.el9_0.noarch libpwquality-1.4.4-8.el9.x86_64 gpg-pubkey-fd431d51-4ae0493b diffutils-3.7-12.el9.x86_64 bzip2-1.0.8-8.el9.x86_64 util-linux-2.37.4-9.el9.x86_64 pcre-8.44-3.el9.3.x86_64 perl-Socket-2.031-4.el9.x86_64 ncurses-base-6.2-8.20210508.el9.noarch libdb-5.3.28-53.el9.x86_64 perl-parent-0.238-460.el9.noarch perl-Scalar-List-Utils-1.56-461.el9.x86_64 ca-certificates-2022.2.54-90.2.el9_0.noarch rust-srpm-macros-17-4.el9.noarch perl-constant-1.33-461.el9.noarch libeconf-0.4.1-2.el9.x86_64 perl-Term-Cap-1.17-460.el9.noarch pam-1.5.1-12.el9.x86_64 perl-Carp-1.50-460.el9.noarch glibc-2.34-40.el9_1.1.x86_64 gpg-pubkey-3228467c-613798eb perl-Getopt-Long-2.52-4.el9.noarch perl-Pod-Usage-2.01-4.el9.noarch binutils-gold-2.35.2-24.el9.x86_64 perl-subs-1.03-479.el9.noarch libzstd-1.5.1-2.el9.x86_64 gzip-1.12-1.el9.x86_64 filesystem-3.16-2.el9.x86_64 tar-1.34-6.el9_1.x86_64 zstd-1.5.1-2.el9.x86_64 perl-vars-1.05-479.el9.noarch cyrus-sasl-lib-2.1.27-20.el9.x86_64 setup-2.13.7-7.el9.noarch perl-Pod-Simple-3.42-4.el9.noarch lz4-libs-1.9.3-5.el9.x86_64 libnghttp2-1.43.0-5.el9.x86_64 audit-libs-3.0.7-103.el9.x86_64 findutils-4.8.0-5.el9.x86_64 perl-libs-5.32.1-479.el9.x86_64 perl-mro-1.23-479.el9.x86_64 p11-kit-0.24.1-2.el9.x86_64 coreutils-8.32-32.el9.x86_64 gmp-6.2.0-10.el9.x86_64 perl-Encode-3.08-462.el9.x86_64 libidn2-2.3.0-7.el9.x86_64 epel-rpm-macros-9-11.el9.noarch perl-Class-Struct-0.66-479.el9.noarch rpm-build-4.16.1.3-19.el9_1.x86_64 libsigsegv-2.13-4.el9.x86_64 libevent-2.1.12-6.el9.x86_64 util-linux-core-2.37.4-9.el9.x86_64 go-srpm-macros-3.0.9-9.el9.noarch perl-Text-ParseWords-3.30-460.el9.noarch libbrotli-1.0.9-6.el9.x86_64 perl-if-0.60.800-479.el9.noarch unzip-6.0-56.el9.x86_64 lua-srpm-macros-1-6.el9.noarch libtasn1-4.16.0-8.el9_1.x86_64 redhat-release-9.1-1.9.el9.x86_64 coreutils-common-8.32-32.el9.x86_64 gdb-minimal-10.2-10.el9.x86_64 libattr-2.5.1-3.el9.x86_64 keyutils-libs-1.6.1-4.el9.x86_64 rpm-libs-4.16.1.3-19.el9_1.x86_64 gdbm-libs-1.19-4.el9.x86_64 perl-File-Basename-2.85-479.el9.noarch libcurl-7.76.1-19.el9_1.2.x86_64 libgomp-11.3.1-2.1.el9.x86_64 libarchive-3.5.3-3.el9.x86_64 xz-5.2.5-8.el9_0.x86_64 perl-MIME-Base64-3.16-4.el9.x86_64 pcre2-10.40-2.el9.x86_64 openssl-3.0.1-47.el9_1.x86_64 libssh-0.9.6-3.el9.x86_64 pkgconf-pkg-config-1.7.3-9.el9.x86_64 ansible-srpm-macros-1-8.1.el9.noarch glibc-common-2.34-40.el9_1.1.x86_64 perl-overloading-0.02-479.el9.noarch grep-3.6-5.el9.x86_64 libsemanage-3.4-2.el9.x86_64 shadow-utils-4.9-5.el9.x86_64 ocaml-srpm-macros-6-6.el9.noarch glibc-gconv-extra-2.34-40.el9_1.1.x86_64 gawk-5.1.0-6.el9.x86_64 libcap-ng-0.8.2-7.el9.x86_64 perl-Pod-Escapes-1.07-460.el9.noarch crypto-policies-20220815-1.git0fbe86f.el9.noarch sed-4.8-9.el9.x86_64 perl-File-stat-1.09-479.el9.noarch libcom_err-1.46.5-3.el9.x86_64 publicsuffix-list-dafsa-20210518-3.el9.noarch perl-Time-Local-1.300-7.el9.noarch xz-libs-5.2.5-8.el9_0.x86_64 elfutils-debuginfod-client-0.187-5.el9.x86_64 elfutils-0.187-5.el9.x86_64 libsmartcols-2.37.4-9.el9.x86_64 which-2.21-28.el9.x86_64 readline-8.1-4.el9.x86_64 dwz-0.14-3.el9.x86_64 perl-SelectSaver-1.02-479.el9.noarch elfutils-libs-0.187-5.el9.x86_64 bzip2-libs-1.0.8-8.el9.x86_64 libuuid-2.37.4-9.el9.x86_64 perl-overload-1.31-479.el9.noarch ghc-srpm-macros-1.5.0-6.el9.noarch file-libs-5.39-10.el9.x86_64 glibc-minimal-langpack-2.34-40.el9_1.1.x86_64 libstdc++-11.3.1-2.1.el9.x86_64 cpio-2.13-16.el9.x86_64 curl-7.76.1-19.el9_1.2.x86_64 pcre2-syntax-10.40-2.el9.noarch perl-Fcntl-1.13-479.el9.x86_64 alternatives-1.20-2.el9.x86_64 perl-PathTools-3.78-461.el9.x86_64 libcap-2.48-8.el9.x86_64 ed-1.14.2-12.el9.x86_64 popt-1.18-8.el9.x86_64 zlib-1.2.11-35.el9_1.x86_64 libverto-0.3.2-3.el9.x86_64 libpkgconf-1.7.3-9.el9.x86_64 libgcc-11.3.1-2.1.el9.x86_64 binutils-2.35.2-24.el9.x86_64 ncurses-6.2-8.20210508.el9.x86_64 lua-libs-5.4.4-2.el9_1.x86_64 Start: buildsrpm Start: rpmbuild -bs warning: Macro expanded in comment on line 45: %{version}.tar.gz Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1680912000 Wrote: /builddir/build/SRPMS/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.src.rpm Finish: rpmbuild -bs cp: ‘var/lib/mock/rhel+epel-9-x86_64-1681932083.179075/root/var/log’: No such file or directory INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/rhel+epel-9-x86_64-1681932083.179075/root/var/log/dnf.rpm.log /var/lib/mock/rhel+epel-9-x86_64-1681932083.179075/root/var/log/dnf.librepo.log /var/lib/mock/rhel+epel-9-x86_64-1681932083.179075/root/var/log/dnf.log Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-qi8pl43x/R/R.spec) Config(child) 0 minutes 31 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 (timeout=18000): unbuffer mock --rebuild '/var/lib/copr-rpmbuild/results/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.src.rpm' --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1681932083.179075 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 3.5 starting (python version = 3.11.0, NVR = mock-3.5-1.fc37)... 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/results/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.src.rpm) Config(rhel+epel-9-x86_64) Start: clean chroot Finish: clean chroot Start: chroot init INFO: mounting tmpfs at /var/lib/mock/rhel+epel-9-x86_64-1681932083.179075/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 Mock Version: 3.5 INFO: Mock Version: 3.5 Start: dnf update No matches found for the following disable plugin patterns: local, spacewalk, versionlock Updating Subscription Management repositories. Unable to read consumer identity This system is not registered with an entitlement server. You can use subscription-manager to register. Copr repository 54 kB/s | 1.8 kB 00:00 Red Hat Enterprise Linux - BaseOS 32 kB/s | 4.1 kB 00:00 Red Hat Enterprise Linux - AppStream 37 kB/s | 4.5 kB 00:00 Red Hat Enterprise Linux - CodeReady Linux Buil 36 kB/s | 4.1 kB 00:00 Extra Packages for Enterprise Linux 9 - x86_64 155 kB/s | 22 kB 00:00 Dependencies resolved. Nothing to do. Complete! Finish: dnf update Finish: chroot init Start: build phase for R-4.3.0-0.el9~bootstrap.r84280.copr5806616.src.rpm Start: build setup for R-4.3.0-0.el9~bootstrap.r84280.copr5806616.src.rpm warning: Macro expanded in comment on line 45: %{version}.tar.gz Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1680912000 Wrote: /builddir/build/SRPMS/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.src.rpm No matches found for the following disable plugin patterns: local, spacewalk, versionlock Updating Subscription Management repositories. Unable to read consumer identity This system is not registered with an entitlement server. You can use subscription-manager to register. Copr repository 67 kB/s | 1.8 kB 00:00 Red Hat Enterprise Linux - BaseOS 33 kB/s | 4.1 kB 00:00 Red Hat Enterprise Linux - AppStream 37 kB/s | 4.5 kB 00:00 Red Hat Enterprise Linux - CodeReady Linux Buil 29 kB/s | 4.1 kB 00:00 Extra Packages for Enterprise Linux 9 - x86_64 79 kB/s | 22 kB 00:00 Dependencies resolved. ======================================================================================================== Package Arch Version Repository Size ======================================================================================================== Installing: autoconf noarch 2.69-38.el9 appstream 685 k automake noarch 1.16.2-6.el9 appstream 693 k bzip2-devel x86_64 1.0.8-8.el9 appstream 216 k cairo-devel x86_64 1.17.4-7.el9 appstream 213 k flexiblas-devel x86_64 3.0.4-8.el9 codeready-builder 112 k gcc-c++ x86_64 11.3.1-2.1.el9 appstream 13 M gcc-gfortran x86_64 11.3.1-2.1.el9 appstream 13 M java-11-openjdk-devel x86_64 1:11.0.19.0.7-1.el9_1 appstream 3.3 M libICE-devel x86_64 1.0.10-8.el9 appstream 49 k libSM-devel x86_64 1.2.3-10.el9 appstream 14 k libX11-devel x86_64 1.7.0-7.el9 appstream 1.1 M libXmu-devel x86_64 1.1.3-8.el9 appstream 29 k libXt-devel x86_64 1.2.0-6.el9 appstream 480 k libcurl-devel x86_64 7.76.1-19.el9_1.2 appstream 981 k libicu-devel x86_64 67.1-9.el9 appstream 943 k libjpeg-turbo-devel x86_64 2.0.90-6.el9_1 appstream 104 k libpng-devel x86_64 2:1.6.37-12.el9 appstream 297 k libtiff-devel x86_64 4.4.0-5.el9_1 appstream 559 k libtirpc-devel x86_64 1.3.3-0.el9 codeready-builder 130 k libtool x86_64 2.4.6-45.el9 appstream 586 k ncurses-devel x86_64 6.2-8.20210508.el9 appstream 733 k pango-devel x86_64 1.48.7-2.el9 appstream 154 k pcre2-devel x86_64 10.40-2.el9 appstream 519 k readline-devel x86_64 8.1-4.el9 appstream 206 k tcl-devel x86_64 1:8.6.10-7.el9 appstream 173 k texinfo-tex x86_64 6.7-15.el9 codeready-builder 143 k texlive-collection-latexrecommended noarch 9:20200406-25.el9 appstream 12 k texlive-upquote noarch 9:20200406-25.el9 appstream 172 k tk-devel x86_64 1:8.6.10-9.el9 appstream 556 k tre-devel x86_64 0.8.0-34.20140228gitc2f5d13.el9 epel 12 k valgrind-devel x86_64 1:3.19.0-3.el9 appstream 51 k xz-devel x86_64 5.2.5-8.el9_0 appstream 59 k zlib-devel x86_64 1.2.11-35.el9_1 appstream 47 k Installing dependencies: adobe-mappings-cmap noarch 20171205-12.el9 appstream 1.9 M adobe-mappings-cmap-deprecated noarch 20171205-12.el9 appstream 110 k adobe-mappings-pdf noarch 20180407-10.el9 appstream 650 k alsa-lib x86_64 1.2.7.2-1.el9 appstream 522 k annobin x86_64 10.73-3.el9 appstream 965 k avahi-libs x86_64 0.8-12.el9 baseos 71 k brotli x86_64 1.0.9-6.el9 appstream 314 k brotli-devel x86_64 1.0.9-6.el9 appstream 36 k cairo x86_64 1.17.4-7.el9 appstream 664 k cmake-filesystem x86_64 3.20.2-7.el9 appstream 27 k copy-jdk-configs noarch 4.0-3.el9 appstream 29 k cpp x86_64 11.3.1-2.1.el9 appstream 11 M crypto-policies-scripts noarch 20220815-1.git0fbe86f.el9 baseos 97 k cups-libs x86_64 1:2.3.3op2-16.el9 baseos 267 k dbus-libs x86_64 1:1.12.20-7.el9_1 baseos 155 k dejavu-sans-fonts noarch 2.37-18.el9 baseos 1.3 M emacs-filesystem noarch 1:27.2-6.el9 appstream 10 k expat x86_64 2.4.9-1.el9_1.1 baseos 120 k flexiblas x86_64 3.0.4-8.el9 appstream 34 k flexiblas-netlib x86_64 3.0.4-8.el9 appstream 3.0 M flexiblas-netlib64 x86_64 3.0.4-8.el9 codeready-builder 2.9 M flexiblas-openblas-openmp x86_64 3.0.4-8.el9 appstream 19 k flexiblas-openblas-openmp64 x86_64 3.0.4-8.el9 codeready-builder 19 k fontconfig x86_64 2.14.0-2.el9_1 appstream 301 k fontconfig-devel x86_64 2.14.0-2.el9_1 appstream 178 k fonts-filesystem noarch 1:2.0.5-7.el9.1 baseos 11 k freetype x86_64 2.10.4-9.el9 baseos 391 k freetype-devel x86_64 2.10.4-9.el9 appstream 1.1 M fribidi x86_64 1.0.10-6.el9.2 appstream 89 k fribidi-devel x86_64 1.0.10-6.el9.2 appstream 31 k gcc x86_64 11.3.1-2.1.el9 appstream 32 M gcc-plugin-annobin x86_64 11.3.1-2.1.el9 appstream 70 k gettext x86_64 0.21-7.el9 baseos 1.1 M gettext-libs x86_64 0.21-7.el9 baseos 308 k ghostscript x86_64 9.54.0-7.el9 appstream 48 k ghostscript-tools-fonts x86_64 9.54.0-7.el9 appstream 15 k ghostscript-tools-printing x86_64 9.54.0-7.el9 appstream 16 k glib2 x86_64 2.68.4-5.el9 baseos 2.7 M glib2-devel x86_64 2.68.4-5.el9 appstream 560 k glibc-devel x86_64 2.34-40.el9_1.1 appstream 47 k glibc-headers x86_64 2.34-40.el9_1.1 appstream 547 k gnutls x86_64 3.7.6-18.el9_1 baseos 1.1 M google-droid-sans-fonts noarch 20200215-11.el9.2 appstream 2.7 M graphite2 x86_64 1.3.14-9.el9 baseos 98 k graphite2-devel x86_64 1.3.14-9.el9 appstream 24 k harfbuzz x86_64 2.7.4-8.el9 baseos 629 k harfbuzz-devel x86_64 2.7.4-8.el9 appstream 352 k harfbuzz-icu x86_64 2.7.4-8.el9 appstream 16 k java-11-openjdk x86_64 1:11.0.19.0.7-1.el9_1 appstream 445 k java-11-openjdk-headless x86_64 1:11.0.19.0.7-1.el9_1 appstream 40 M javapackages-filesystem noarch 6.0.0-3.el9 appstream 18 k jbig2dec-libs x86_64 0.19-6.el9 appstream 76 k jbigkit-libs x86_64 2.1-23.el9 appstream 56 k kernel-headers x86_64 5.14.0-162.23.1.el9_1 appstream 3.5 M langpacks-core-font-en noarch 3.0-16.el9 appstream 11 k lcms2 x86_64 2.12-3.el9 appstream 169 k libICE x86_64 1.0.10-8.el9 appstream 73 k libSM x86_64 1.2.3-10.el9 appstream 44 k libX11 x86_64 1.7.0-7.el9 appstream 648 k libX11-common noarch 1.7.0-7.el9 appstream 210 k libX11-xcb x86_64 1.7.0-7.el9 appstream 14 k libXau x86_64 1.0.9-8.el9 appstream 34 k libXau-devel x86_64 1.0.9-8.el9 appstream 17 k libXaw x86_64 1.0.13-19.el9 appstream 200 k libXcomposite x86_64 0.4.5-7.el9 appstream 26 k libXext x86_64 1.3.4-8.el9 appstream 42 k libXext-devel x86_64 1.3.4-8.el9 appstream 91 k libXft x86_64 2.3.3-8.el9 appstream 64 k libXft-devel x86_64 2.3.3-8.el9 appstream 21 k libXi x86_64 1.7.10-8.el9 appstream 41 k libXmu x86_64 1.1.3-8.el9 appstream 78 k libXpm x86_64 3.5.13-8.el9_1 appstream 60 k libXrender x86_64 0.9.10-16.el9 appstream 30 k libXrender-devel x86_64 0.9.10-16.el9 appstream 18 k libXt x86_64 1.2.0-6.el9 appstream 182 k libXtst x86_64 1.2.3-16.el9 appstream 23 k libblkid-devel x86_64 2.37.4-9.el9 appstream 19 k libdatrie x86_64 0.2.13-4.el9 appstream 34 k libdatrie-devel x86_64 0.2.13-4.el9 appstream 146 k libedit x86_64 3.1-37.20210216cvs.el9 baseos 108 k libffi-devel x86_64 3.4.2-7.el9 appstream 32 k libfontenc x86_64 1.1.3-17.el9 appstream 33 k libgfortran x86_64 11.3.1-2.1.el9 baseos 826 k libgs x86_64 9.54.0-7.el9 appstream 3.2 M libicu x86_64 67.1-9.el9 baseos 9.6 M libijs x86_64 0.35-15.el9 appstream 32 k libjpeg-turbo x86_64 2.0.90-6.el9_1 appstream 178 k libmount-devel x86_64 2.37.4-9.el9 appstream 20 k libmpc x86_64 1.2.1-4.el9 appstream 65 k libpaper x86_64 1.1.28-4.el9 appstream 49 k libpng x86_64 2:1.6.37-12.el9 baseos 119 k libquadmath x86_64 11.3.1-2.1.el9 baseos 221 k libquadmath-devel x86_64 11.3.1-2.1.el9 appstream 61 k libselinux-devel x86_64 3.4-3.el9 appstream 162 k libsepol-devel x86_64 3.4-1.1.el9 appstream 53 k libstdc++-devel x86_64 11.3.1-2.1.el9 appstream 2.4 M libthai x86_64 0.1.28-8.el9 appstream 211 k libthai-devel x86_64 0.1.28-8.el9 appstream 138 k libtiff x86_64 4.4.0-5.el9_1 appstream 199 k libtirpc x86_64 1.3.3-0.el9 baseos 96 k libwebp x86_64 1.2.0-3.el9 appstream 282 k libxcb x86_64 1.13.1-9.el9 appstream 247 k libxcb-devel x86_64 1.13.1-9.el9 appstream 1.5 M libxcrypt-devel x86_64 4.4.18-3.el9 appstream 32 k libxml2-devel x86_64 2.9.13-3.el9_1 appstream 903 k lksctp-tools x86_64 1.0.19-2.el9 baseos 98 k llvm-libs x86_64 14.0.6-1.el9 appstream 20 M lua x86_64 5.4.4-2.el9_1 appstream 192 k lua-posix x86_64 35.0-8.el9 appstream 155 k m4 x86_64 1.4.19-1.el9 appstream 304 k make x86_64 1:4.3-7.el9 baseos 542 k mkfontscale x86_64 1.2.1-3.el9 appstream 34 k ncurses-c++-libs x86_64 6.2-8.20210508.el9 appstream 40 k nettle x86_64 3.8-3.el9_0 baseos 552 k nspr x86_64 4.34.0-18.el9_1 appstream 138 k nss x86_64 3.79.0-18.el9_1 appstream 708 k nss-softokn x86_64 3.79.0-18.el9_1 appstream 386 k nss-softokn-freebl x86_64 3.79.0-18.el9_1 appstream 334 k nss-sysinit x86_64 3.79.0-18.el9_1 appstream 22 k nss-util x86_64 3.79.0-18.el9_1 appstream 91 k openblas x86_64 0.3.15-3.el9 appstream 36 k openblas-openmp x86_64 0.3.15-3.el9 appstream 4.6 M openblas-openmp64 x86_64 0.3.15-3.el9 codeready-builder 4.4 M openjpeg2 x86_64 2.4.0-7.el9 appstream 166 k pango x86_64 1.48.7-2.el9 appstream 308 k pcre-cpp x86_64 8.44-3.el9.3 appstream 28 k pcre-devel x86_64 8.44-3.el9.3 appstream 511 k pcre-utf16 x86_64 8.44-3.el9.3 appstream 188 k pcre-utf32 x86_64 8.44-3.el9.3 appstream 178 k pcre2-utf16 x86_64 10.40-2.el9 appstream 218 k pcre2-utf32 x86_64 10.40-2.el9 appstream 207 k perl-B x86_64 1.80-479.el9 appstream 194 k perl-Data-Dumper x86_64 2.174-462.el9 appstream 59 k perl-Digest noarch 1.19-4.el9 appstream 29 k perl-Digest-MD5 x86_64 2.58-4.el9 appstream 39 k perl-DynaLoader x86_64 1.47-479.el9 appstream 36 k perl-File-Compare noarch 1.100.600-479.el9 appstream 24 k perl-File-Copy noarch 2.34-479.el9 appstream 30 k perl-File-Find noarch 1.37-479.el9 appstream 36 k perl-FileHandle noarch 2.03-479.el9 appstream 26 k perl-Filter x86_64 2:1.60-4.el9 appstream 95 k perl-Text-Unidecode noarch 1.30-16.el9 appstream 198 k perl-Thread-Queue noarch 3.14-460.el9 appstream 24 k perl-Unicode-EastAsianWidth noarch 12.0-7.el9 codeready-builder 21 k perl-Unicode-Normalize x86_64 1.27-461.el9 appstream 94 k perl-XML-Parser x86_64 2.46-9.el9 appstream 240 k perl-XML-XPath noarch 1.44-11.el9 appstream 92 k perl-base noarch 2.27-479.el9 appstream 26 k perl-encoding x86_64 4:3.00-462.el9 appstream 64 k perl-libintl-perl x86_64 1.32-4.el9 appstream 872 k perl-locale noarch 1.09-479.el9 appstream 24 k perl-open noarch 1.12-479.el9 appstream 26 k perl-threads x86_64 1:2.25-460.el9 appstream 61 k perl-threads-shared x86_64 1.61-460.el9 appstream 48 k pixman x86_64 0.40.0-5.el9 appstream 272 k pixman-devel x86_64 0.40.0-5.el9 appstream 19 k poppler x86_64 21.01.0-13.el9 appstream 1.1 M poppler-data noarch 0.4.9-9.el9 appstream 1.9 M python3 x86_64 3.9.14-1.el9_1.2 baseos 31 k python3-libs x86_64 3.9.14-1.el9_1.2 baseos 7.8 M python3-pip-wheel noarch 21.2.3-6.el9 baseos 1.1 M python3-setuptools-wheel noarch 53.0.0-10.el9_1.1 baseos 470 k sysprof-capture-devel x86_64 3.40.1-3.el9 appstream 64 k tcl x86_64 1:8.6.10-7.el9 baseos 1.1 M teckit x86_64 2.5.9-8.el9 appstream 450 k texinfo x86_64 6.7-15.el9 codeready-builder 992 k texlive-ae noarch 9:20200406-25.el9 appstream 130 k texlive-algorithms noarch 9:20200406-25.el9 appstream 303 k texlive-alphalph noarch 9:20200406-25.el9 appstream 356 k texlive-amscls noarch 9:20200406-25.el9 appstream 1.1 M texlive-amsfonts noarch 9:20200406-25.el9 appstream 4.8 M texlive-amsmath noarch 9:20200406-25.el9 appstream 2.3 M texlive-anysize noarch 9:20200406-25.el9 appstream 48 k texlive-atbegshi noarch 9:20200406-25.el9 appstream 405 k texlive-attachfile noarch 9:20200406-25.el9 appstream 353 k texlive-attachfile2 noarch 9:20200406-25.el9 appstream 450 k texlive-atveryend noarch 9:20200406-25.el9 appstream 381 k texlive-auxhook noarch 9:20200406-25.el9 appstream 290 k texlive-avantgar noarch 9:20200406-25.el9 appstream 331 k texlive-babel noarch 9:20200406-25.el9 appstream 1.3 M texlive-babel-english noarch 9:20200406-25.el9 appstream 145 k texlive-babelbib noarch 9:20200406-25.el9 appstream 1.2 M texlive-base noarch 9:20200406-25.el9 appstream 2.3 M texlive-beamer noarch 9:20200406-25.el9 appstream 3.0 M texlive-bera noarch 9:20200406-25.el9 appstream 384 k texlive-beton noarch 9:20200406-25.el9 appstream 73 k texlive-bibtex x86_64 9:20200406-25.el9 appstream 1.7 M texlive-bidi noarch 9:20200406-25.el9 appstream 3.7 M texlive-bigintcalc noarch 9:20200406-25.el9 appstream 461 k texlive-bitset noarch 9:20200406-25.el9 appstream 616 k texlive-bookman noarch 9:20200406-25.el9 appstream 378 k texlive-bookmark noarch 9:20200406-25.el9 appstream 477 k texlive-booktabs noarch 9:20200406-25.el9 appstream 301 k texlive-breakurl noarch 9:20200406-25.el9 appstream 121 k texlive-breqn noarch 9:20200406-25.el9 appstream 1.0 M texlive-caption noarch 9:20200406-25.el9 appstream 1.5 M texlive-carlisle noarch 9:20200406-25.el9 appstream 92 k texlive-catchfile noarch 9:20200406-25.el9 appstream 303 k texlive-changepage noarch 9:20200406-25.el9 appstream 284 k texlive-charter noarch 9:20200406-25.el9 appstream 212 k texlive-chngcntr noarch 9:20200406-25.el9 appstream 242 k texlive-cite noarch 9:20200406-25.el9 appstream 247 k texlive-cm noarch 9:20200406-25.el9 appstream 339 k texlive-cm-super noarch 9:20200406-25.el9 appstream 62 M texlive-cmap noarch 9:20200406-25.el9 appstream 23 k texlive-cmextra noarch 9:20200406-25.el9 appstream 51 k texlive-collection-basic noarch 9:20200406-25.el9 appstream 11 k texlive-collection-fontsrecommended noarch 9:20200406-25.el9 appstream 11 k texlive-collection-latex noarch 9:20200406-25.el9 appstream 11 k texlive-colorprofiles noarch 9:20200406-25.el9 appstream 143 k texlive-colortbl noarch 9:20200406-25.el9 appstream 590 k texlive-courier noarch 9:20200406-25.el9 appstream 532 k texlive-crop noarch 9:20200406-25.el9 appstream 334 k texlive-csquotes noarch 9:20200406-25.el9 appstream 339 k texlive-ctable noarch 9:20200406-25.el9 appstream 705 k texlive-currfile noarch 9:20200406-25.el9 appstream 185 k texlive-dvipdfmx x86_64 9:20200406-25.el9 appstream 3.0 M texlive-dvips x86_64 9:20200406-25.el9 appstream 1.1 M texlive-ec noarch 9:20200406-25.el9 appstream 791 k texlive-enctex noarch 9:20200406-25.el9 appstream 304 k texlive-enumitem noarch 9:20200406-25.el9 appstream 184 k texlive-epsf noarch 9:20200406-25.el9 appstream 287 k texlive-epstopdf-pkg noarch 9:20200406-25.el9 appstream 360 k texlive-eso-pic noarch 9:20200406-25.el9 appstream 262 k texlive-etex noarch 9:20200406-25.el9 appstream 206 k texlive-etex-pkg noarch 9:20200406-25.el9 appstream 18 k texlive-etexcmds noarch 9:20200406-25.el9 appstream 306 k texlive-etoolbox noarch 9:20200406-25.el9 appstream 253 k texlive-euenc noarch 9:20200406-25.el9 appstream 162 k texlive-euler noarch 9:20200406-25.el9 appstream 246 k texlive-euro noarch 9:20200406-25.el9 appstream 211 k texlive-eurosym noarch 9:20200406-25.el9 appstream 433 k texlive-extsizes noarch 9:20200406-25.el9 appstream 218 k texlive-fancybox noarch 9:20200406-25.el9 appstream 291 k texlive-fancyhdr noarch 9:20200406-25.el9 appstream 779 k texlive-fancyref noarch 9:20200406-25.el9 appstream 118 k texlive-fancyvrb noarch 9:20200406-25.el9 appstream 155 k texlive-filecontents noarch 9:20200406-25.el9 appstream 133 k texlive-filehook noarch 9:20200406-25.el9 appstream 310 k texlive-finstrut noarch 9:20200406-25.el9 appstream 187 k texlive-fix2col noarch 9:20200406-25.el9 appstream 221 k texlive-float noarch 9:20200406-25.el9 appstream 125 k texlive-fontspec noarch 9:20200406-25.el9 appstream 1.2 M texlive-footmisc noarch 9:20200406-25.el9 appstream 334 k texlive-footnotehyper noarch 9:20200406-25.el9 appstream 92 k texlive-fp noarch 9:20200406-25.el9 appstream 249 k texlive-fpl noarch 9:20200406-25.el9 appstream 311 k texlive-geometry noarch 9:20200406-25.el9 appstream 860 k texlive-gettitlestring noarch 9:20200406-25.el9 appstream 323 k texlive-glyphlist noarch 9:20200406-25.el9 appstream 38 k texlive-graphics noarch 9:20200406-25.el9 appstream 1.9 M texlive-graphics-cfg noarch 9:20200406-25.el9 appstream 15 k texlive-graphics-def noarch 9:20200406-25.el9 appstream 24 k texlive-grfext noarch 9:20200406-25.el9 appstream 313 k texlive-grffile noarch 9:20200406-25.el9 appstream 356 k texlive-helvetic noarch 9:20200406-25.el9 appstream 674 k texlive-hobsub noarch 9:20200406-25.el9 appstream 74 k texlive-hologo noarch 9:20200406-25.el9 appstream 559 k texlive-hycolor noarch 9:20200406-25.el9 appstream 380 k texlive-hyperref noarch 9:20200406-25.el9 appstream 3.2 M texlive-hyph-utf8 noarch 9:20200406-25.el9 appstream 307 k texlive-hyphen-base noarch 9:20200406-25.el9 appstream 36 k texlive-hyphenex noarch 9:20200406-25.el9 appstream 20 k texlive-ifmtarg noarch 9:20200406-25.el9 appstream 49 k texlive-ifplatform noarch 9:20200406-25.el9 appstream 162 k texlive-iftex noarch 9:20200406-25.el9 appstream 229 k texlive-index noarch 9:20200406-25.el9 appstream 180 k texlive-infwarerr noarch 9:20200406-25.el9 appstream 291 k texlive-intcalc noarch 9:20200406-25.el9 appstream 428 k texlive-jknapltx noarch 9:20200406-25.el9 appstream 31 k texlive-kastrup noarch 9:20200406-25.el9 appstream 148 k texlive-knuth-lib noarch 9:20200406-25.el9 appstream 54 k texlive-knuth-local noarch 9:20200406-25.el9 appstream 47 k texlive-koma-script noarch 9:20200406-25.el9 appstream 6.0 M texlive-kpathsea x86_64 9:20200406-25.el9 appstream 1.1 M texlive-kvdefinekeys noarch 9:20200406-25.el9 appstream 302 k texlive-kvoptions noarch 9:20200406-25.el9 appstream 477 k texlive-kvsetkeys noarch 9:20200406-25.el9 appstream 376 k texlive-l3backend noarch 9:20200406-25.el9 appstream 812 k texlive-l3experimental noarch 9:20200406-25.el9 appstream 3.1 M texlive-l3kernel noarch 9:20200406-25.el9 appstream 10 M texlive-l3packages noarch 9:20200406-25.el9 appstream 1.7 M texlive-latex noarch 9:20200406-25.el9 appstream 22 M texlive-latex-fonts noarch 9:20200406-25.el9 appstream 52 k texlive-latexbug noarch 9:20200406-25.el9 appstream 198 k texlive-latexconfig noarch 9:20200406-25.el9 appstream 17 k texlive-letltxmacro noarch 9:20200406-25.el9 appstream 296 k texlive-lib x86_64 9:20200406-25.el9 appstream 483 k texlive-lineno noarch 9:20200406-25.el9 appstream 711 k texlive-listings noarch 9:20200406-25.el9 appstream 2.2 M texlive-lm noarch 9:20200406-25.el9 appstream 14 M texlive-lm-math noarch 9:20200406-25.el9 appstream 539 k texlive-ltabptch noarch 9:20200406-25.el9 appstream 276 k texlive-ltxcmds noarch 9:20200406-25.el9 appstream 396 k texlive-ltxmisc noarch 9:20200406-25.el9 appstream 31 k texlive-lua-alt-getopt noarch 9:20200406-25.el9 appstream 19 k texlive-luahbtex x86_64 9:20200406-25.el9 appstream 1.9 M texlive-lualatex-math noarch 9:20200406-25.el9 appstream 209 k texlive-lualibs noarch 9:20200406-25.el9 appstream 232 k texlive-luaotfload noarch 9:20200406-25.el9 appstream 1.2 M texlive-luatex x86_64 9:20200406-25.el9 appstream 3.7 M texlive-luatexbase noarch 9:20200406-25.el9 appstream 275 k texlive-lwarp noarch 9:20200406-25.el9 appstream 3.3 M texlive-makecmds noarch 9:20200406-25.el9 appstream 127 k texlive-makeindex x86_64 9:20200406-25.el9 appstream 439 k texlive-manfnt-font noarch 9:20200406-25.el9 appstream 38 k texlive-marginnote noarch 9:20200406-25.el9 appstream 323 k texlive-marvosym noarch 9:20200406-25.el9 appstream 566 k texlive-mathpazo noarch 9:20200406-25.el9 appstream 453 k texlive-mathspec noarch 9:20200406-25.el9 appstream 190 k texlive-mathtools noarch 9:20200406-25.el9 appstream 989 k texlive-mdwtools noarch 9:20200406-25.el9 appstream 1.6 M texlive-memoir noarch 9:20200406-25.el9 appstream 3.0 M texlive-metafont x86_64 9:20200406-25.el9 appstream 274 k texlive-metalogo noarch 9:20200406-25.el9 appstream 92 k texlive-mflogo noarch 9:20200406-25.el9 appstream 249 k texlive-mflogo-font noarch 9:20200406-25.el9 appstream 38 k texlive-mfnfss noarch 9:20200406-25.el9 appstream 453 k texlive-mfware x86_64 9:20200406-25.el9 appstream 113 k texlive-microtype noarch 9:20200406-25.el9 appstream 1.7 M texlive-minitoc noarch 9:20200406-25.el9 appstream 129 k texlive-mnsymbol noarch 9:20200406-25.el9 appstream 4.7 M texlive-modes noarch 9:20200406-25.el9 appstream 308 k texlive-mparhack noarch 9:20200406-25.el9 appstream 73 k texlive-mptopdf noarch 9:20200406-25.el9 appstream 54 k texlive-ms noarch 9:20200406-25.el9 appstream 575 k texlive-multido noarch 9:20200406-25.el9 appstream 122 k texlive-natbib noarch 9:20200406-25.el9 appstream 442 k texlive-ncntrsbk noarch 9:20200406-25.el9 appstream 373 k texlive-newfloat noarch 9:20200406-25.el9 appstream 116 k texlive-notoccite noarch 9:20200406-25.el9 appstream 234 k texlive-ntgclass noarch 9:20200406-25.el9 appstream 1.7 M texlive-oberdiek noarch 9:20200406-25.el9 appstream 8.6 M texlive-palatino noarch 9:20200406-25.el9 appstream 440 k texlive-paralist noarch 9:20200406-25.el9 appstream 219 k texlive-parallel noarch 9:20200406-25.el9 appstream 131 k texlive-parskip noarch 9:20200406-25.el9 appstream 320 k texlive-pdfcolmk noarch 9:20200406-25.el9 appstream 14 k texlive-pdfescape noarch 9:20200406-25.el9 appstream 348 k texlive-pdflscape noarch 9:20200406-25.el9 appstream 303 k texlive-pdfpages noarch 9:20200406-25.el9 appstream 342 k texlive-pdftex x86_64 9:20200406-25.el9 appstream 2.0 M texlive-pdftexcmds noarch 9:20200406-25.el9 appstream 387 k texlive-pgf noarch 9:20200406-25.el9 appstream 11 M texlive-placeins noarch 9:20200406-25.el9 appstream 264 k texlive-plain noarch 9:20200406-25.el9 appstream 99 k texlive-polyglossia noarch 9:20200406-25.el9 appstream 844 k texlive-psfrag noarch 9:20200406-25.el9 appstream 86 k texlive-pslatex noarch 9:20200406-25.el9 appstream 22 k texlive-psnfss noarch 9:20200406-25.el9 appstream 321 k texlive-pspicture noarch 9:20200406-25.el9 appstream 57 k texlive-pst-3d noarch 9:20200406-25.el9 appstream 117 k texlive-pst-arrow noarch 9:20200406-25.el9 appstream 145 k texlive-pst-coil noarch 9:20200406-25.el9 appstream 266 k texlive-pst-eps noarch 9:20200406-25.el9 appstream 96 k texlive-pst-fill noarch 9:20200406-25.el9 appstream 1.1 M texlive-pst-grad noarch 9:20200406-25.el9 appstream 230 k texlive-pst-math noarch 9:20200406-25.el9 appstream 194 k texlive-pst-node noarch 9:20200406-25.el9 appstream 454 k texlive-pst-plot noarch 9:20200406-25.el9 appstream 1.1 M texlive-pst-text noarch 9:20200406-25.el9 appstream 186 k texlive-pst-tools noarch 9:20200406-25.el9 appstream 118 k texlive-pst-tree noarch 9:20200406-25.el9 appstream 170 k texlive-pstricks noarch 9:20200406-25.el9 appstream 7.2 M texlive-pstricks-add noarch 9:20200406-25.el9 appstream 4.6 M texlive-pxfonts noarch 9:20200406-25.el9 appstream 943 k texlive-qstest noarch 9:20200406-25.el9 appstream 232 k texlive-ragged2e noarch 9:20200406-25.el9 appstream 659 k texlive-rcs noarch 9:20200406-25.el9 appstream 145 k texlive-realscripts noarch 9:20200406-25.el9 appstream 116 k texlive-refcount noarch 9:20200406-25.el9 appstream 331 k texlive-rerunfilecheck noarch 9:20200406-25.el9 appstream 320 k texlive-rsfs noarch 9:20200406-25.el9 appstream 78 k texlive-sansmath noarch 9:20200406-25.el9 appstream 193 k texlive-sansmathaccent noarch 9:20200406-25.el9 appstream 185 k texlive-sauerj noarch 9:20200406-25.el9 appstream 551 k texlive-section noarch 9:20200406-25.el9 appstream 366 k texlive-seminar noarch 9:20200406-25.el9 appstream 389 k texlive-sepnum noarch 9:20200406-25.el9 appstream 359 k texlive-setspace noarch 9:20200406-25.el9 appstream 20 k texlive-showexpl noarch 9:20200406-25.el9 appstream 603 k texlive-soul noarch 9:20200406-25.el9 appstream 320 k texlive-stringenc noarch 9:20200406-25.el9 appstream 699 k texlive-subfig noarch 9:20200406-25.el9 appstream 469 k texlive-symbol noarch 9:20200406-25.el9 appstream 55 k texlive-tex x86_64 9:20200406-25.el9 appstream 214 k texlive-tex-gyre noarch 9:20200406-25.el9 appstream 14 M texlive-tex-gyre-math noarch 9:20200406-25.el9 appstream 1.8 M texlive-tex-ini-files noarch 9:20200406-25.el9 appstream 19 k texlive-texlive-common-doc noarch 9:20200406-25.el9 appstream 450 k texlive-texlive-docindex noarch 9:20200406-25.el9 appstream 184 k texlive-texlive-en noarch 9:20200406-25.el9 appstream 1.9 M texlive-texlive-msg-translations noarch 9:20200406-25.el9 appstream 156 k texlive-texlive-scripts noarch 9:20200406-25.el9 appstream 120 k texlive-texlive-scripts-extra noarch 9:20200406-25.el9 appstream 67 k texlive-texlive.infra noarch 9:20200406-25.el9 appstream 290 k texlive-textcase noarch 9:20200406-25.el9 appstream 202 k texlive-thumbpdf noarch 9:20200406-25.el9 appstream 42 k texlive-times noarch 9:20200406-25.el9 appstream 380 k texlive-tipa noarch 9:20200406-25.el9 appstream 5.1 M texlive-titlesec noarch 9:20200406-25.el9 appstream 671 k texlive-tools noarch 9:20200406-25.el9 appstream 5.0 M texlive-translator noarch 9:20200406-25.el9 appstream 285 k texlive-txfonts noarch 9:20200406-25.el9 appstream 1.4 M texlive-typehtml noarch 9:20200406-25.el9 appstream 171 k texlive-ucharcat noarch 9:20200406-25.el9 appstream 168 k texlive-ucs noarch 9:20200406-25.el9 appstream 1.3 M texlive-underscore noarch 9:20200406-25.el9 appstream 255 k texlive-unicode-data noarch 9:20200406-25.el9 appstream 358 k texlive-unicode-math noarch 9:20200406-25.el9 appstream 1.7 M texlive-uniquecounter noarch 9:20200406-25.el9 appstream 296 k texlive-updmap-map noarch 9:20200406-25.el9 appstream 334 k texlive-url noarch 9:20200406-25.el9 appstream 277 k texlive-utopia noarch 9:20200406-25.el9 appstream 247 k texlive-varwidth noarch 9:20200406-25.el9 appstream 42 k texlive-wasy noarch 9:20200406-25.el9 appstream 342 k texlive-wasy-type1 noarch 9:20200406-25.el9 appstream 272 k texlive-wasysym noarch 9:20200406-25.el9 appstream 175 k texlive-xcolor noarch 9:20200406-25.el9 appstream 689 k texlive-xdvi x86_64 9:20200406-25.el9 appstream 361 k texlive-xetex x86_64 9:20200406-25.el9 appstream 2.2 M texlive-xetexconfig noarch 9:20200406-25.el9 appstream 12 k texlive-xifthen noarch 9:20200406-25.el9 appstream 483 k texlive-xkeyval noarch 9:20200406-25.el9 appstream 411 k texlive-xltxtra noarch 9:20200406-25.el9 appstream 114 k texlive-xunicode noarch 9:20200406-25.el9 appstream 40 k texlive-zapfchan noarch 9:20200406-25.el9 appstream 108 k texlive-zapfding noarch 9:20200406-25.el9 appstream 64 k texlive-zref noarch 9:20200406-25.el9 appstream 666 k tk x86_64 1:8.6.10-9.el9 appstream 1.6 M tre x86_64 0.8.0-34.20140228gitc2f5d13.el9 epel 42 k tre-common noarch 0.8.0-34.20140228gitc2f5d13.el9 epel 31 k ttmkfdir x86_64 3.0.9-65.el9 appstream 55 k tzdata-java noarch 2023c-1.el9 appstream 234 k urw-base35-bookman-fonts noarch 20200910-6.el9 appstream 850 k urw-base35-c059-fonts noarch 20200910-6.el9 appstream 878 k urw-base35-d050000l-fonts noarch 20200910-6.el9 appstream 78 k urw-base35-fonts noarch 20200910-6.el9 appstream 11 k urw-base35-fonts-common noarch 20200910-6.el9 appstream 23 k urw-base35-gothic-fonts noarch 20200910-6.el9 appstream 647 k urw-base35-nimbus-mono-ps-fonts noarch 20200910-6.el9 appstream 799 k urw-base35-nimbus-roman-fonts noarch 20200910-6.el9 appstream 860 k urw-base35-nimbus-sans-fonts noarch 20200910-6.el9 appstream 1.3 M urw-base35-p052-fonts noarch 20200910-6.el9 appstream 977 k urw-base35-standard-symbols-ps-fonts noarch 20200910-6.el9 appstream 44 k urw-base35-z003-fonts noarch 20200910-6.el9 appstream 278 k valgrind x86_64 1:3.19.0-3.el9 appstream 4.8 M xml-common noarch 0.6.3-58.el9 appstream 36 k xorg-x11-fonts-Type1 noarch 7.5-33.el9 appstream 509 k xorg-x11-proto-devel noarch 2021.4-2.el9 appstream 311 k zziplib x86_64 0.13.71-9.el9 appstream 94 k Transaction Summary ======================================================================================================== Install 484 Packages Total download size: 546 M Installed size: 1.4 G Downloading Packages: (1/484): fonts-filesystem-2.0.5-7.el9.1.noarch. 95 kB/s | 11 kB 00:00 (2/484): graphite2-1.3.14-9.el9.x86_64.rpm 646 kB/s | 98 kB 00:00 (3/484): libpng-1.6.37-12.el9.x86_64.rpm 1.3 MB/s | 119 kB 00:00 (4/484): make-4.3-7.el9.x86_64.rpm 2.4 MB/s | 542 kB 00:00 (5/484): libedit-3.1-37.20210216cvs.el9.x86_64. 1.9 MB/s | 108 kB 00:00 (6/484): dejavu-sans-fonts-2.37-18.el9.noarch.r 11 MB/s | 1.3 MB 00:00 (7/484): glib2-2.68.4-5.el9.x86_64.rpm 25 MB/s | 2.7 MB 00:00 (8/484): avahi-libs-0.8-12.el9.x86_64.rpm 1.2 MB/s | 71 kB 00:00 (9/484): gettext-libs-0.21-7.el9.x86_64.rpm 6.2 MB/s | 308 kB 00:00 (10/484): gettext-0.21-7.el9.x86_64.rpm 9.9 MB/s | 1.1 MB 00:00 (11/484): python3-pip-wheel-21.2.3-6.el9.noarch 18 MB/s | 1.1 MB 00:00 (12/484): libgfortran-11.3.1-2.1.el9.x86_64.rpm 13 MB/s | 826 kB 00:00 (13/484): nettle-3.8-3.el9_0.x86_64.rpm 10 MB/s | 552 kB 00:00 (14/484): crypto-policies-scripts-20220815-1.gi 1.9 MB/s | 97 kB 00:00 (15/484): libicu-67.1-9.el9.x86_64.rpm 51 MB/s | 9.6 MB 00:00 (16/484): cups-libs-2.3.3op2-16.el9.x86_64.rpm 5.5 MB/s | 267 kB 00:00 (17/484): lksctp-tools-1.0.19-2.el9.x86_64.rpm 1.9 MB/s | 98 kB 00:00 (18/484): expat-2.4.9-1.el9_1.1.x86_64.rpm 2.5 MB/s | 120 kB 00:00 (19/484): tcl-8.6.10-7.el9.x86_64.rpm 19 MB/s | 1.1 MB 00:00 (20/484): python3-libs-3.9.14-1.el9_1.2.x86_64. 54 MB/s | 7.8 MB 00:00 (21/484): python3-setuptools-wheel-53.0.0-10.el 9.3 MB/s | 470 kB 00:00 (22/484): python3-3.9.14-1.el9_1.2.x86_64.rpm 688 kB/s | 31 kB 00:00 (23/484): freetype-2.10.4-9.el9.x86_64.rpm 5.7 MB/s | 391 kB 00:00 (24/484): dbus-libs-1.12.20-7.el9_1.x86_64.rpm 3.3 MB/s | 155 kB 00:00 (25/484): libtirpc-1.3.3-0.el9.x86_64.rpm 343 kB/s | 96 kB 00:00 (26/484): harfbuzz-2.7.4-8.el9.x86_64.rpm 12 MB/s | 629 kB 00:00 (27/484): gnutls-3.7.6-18.el9_1.x86_64.rpm 17 MB/s | 1.1 MB 00:00 (28/484): libquadmath-11.3.1-2.1.el9.x86_64.rpm 3.2 MB/s | 221 kB 00:00 (29/484): pcre-utf32-8.44-3.el9.3.x86_64.rpm 3.7 MB/s | 178 kB 00:00 (30/484): texlive-mathspec-20200406-25.el9.noar 3.4 MB/s | 190 kB 00:00 (31/484): libdatrie-devel-0.2.13-4.el9.x86_64.r 3.0 MB/s | 146 kB 00:00 (32/484): texlive-atveryend-20200406-25.el9.noa 382 kB/s | 381 kB 00:00 (33/484): texlive-pdfpages-20200406-25.el9.noar 342 kB/s | 342 kB 00:01 (34/484): libXmu-devel-1.1.3-8.el9.x86_64.rpm 311 kB/s | 29 kB 00:00 (35/484): texlive-l3kernel-20200406-25.el9.noar 57 MB/s | 10 MB 00:00 (36/484): perl-Data-Dumper-2.174-462.el9.x86_64 938 kB/s | 59 kB 00:00 (37/484): texlive-pdfescape-20200406-25.el9.noa 339 kB/s | 348 kB 00:01 (38/484): texlive-lwarp-20200406-25.el9.noarch. 37 MB/s | 3.3 MB 00:00 (39/484): jbig2dec-libs-0.19-6.el9.x86_64.rpm 1.3 MB/s | 76 kB 00:00 (40/484): glib2-devel-2.68.4-5.el9.x86_64.rpm 9.1 MB/s | 560 kB 00:00 (41/484): texlive-makeindex-20200406-25.el9.x86 7.5 MB/s | 439 kB 00:00 (42/484): texlive-underscore-20200406-25.el9.no 4.8 MB/s | 255 kB 00:00 (43/484): texlive-caption-20200406-25.el9.noarc 19 MB/s | 1.5 MB 00:00 (44/484): texlive-pst-eps-20200406-25.el9.noarc 109 kB/s | 96 kB 00:00 (45/484): perl-Filter-1.60-4.el9.x86_64.rpm 1.9 MB/s | 95 kB 00:00 (46/484): texlive-texlive-scripts-20200406-25.e 128 kB/s | 120 kB 00:00 (47/484): xorg-x11-proto-devel-2021.4-2.el9.noa 5.2 MB/s | 311 kB 00:00 (48/484): libXt-1.2.0-6.el9.x86_64.rpm 3.4 MB/s | 182 kB 00:00 (49/484): texlive-intcalc-20200406-25.el9.noarc 406 kB/s | 428 kB 00:01 (50/484): libxcb-devel-1.13.1-9.el9.x86_64.rpm 21 MB/s | 1.5 MB 00:00 (51/484): texlive-kpathsea-20200406-25.el9.x86_ 1.4 MB/s | 1.1 MB 00:00 (52/484): texlive-filehook-20200406-25.el9.noar 3.7 MB/s | 310 kB 00:00 (53/484): texlive-lualatex-math-20200406-25.el9 3.8 MB/s | 209 kB 00:00 (54/484): libXt-devel-1.2.0-6.el9.x86_64.rpm 8.7 MB/s | 480 kB 00:00 (55/484): texlive-pst-plot-20200406-25.el9.noar 18 MB/s | 1.1 MB 00:00 (56/484): texlive-zapfding-20200406-25.el9.noar 1.2 MB/s | 64 kB 00:00 (57/484): texlive-ncntrsbk-20200406-25.el9.noar 6.2 MB/s | 373 kB 00:00 (58/484): brotli-1.0.9-6.el9.x86_64.rpm 4.8 MB/s | 314 kB 00:00 (59/484): perl-Digest-MD5-2.58-4.el9.x86_64.rpm 41 kB/s | 39 kB 00:00 (60/484): flexiblas-openblas-openmp-3.0.4-8.el9 431 kB/s | 19 kB 00:00 (61/484): texlive-mparhack-20200406-25.el9.noar 40 kB/s | 73 kB 00:01 (62/484): libXtst-1.2.3-16.el9.x86_64.rpm 435 kB/s | 23 kB 00:00 (63/484): copy-jdk-configs-4.0-3.el9.noarch.rpm 633 kB/s | 29 kB 00:00 (64/484): texlive-algorithms-20200406-25.el9.no 366 kB/s | 303 kB 00:00 (65/484): texlive-realscripts-20200406-25.el9.n 118 kB/s | 116 kB 00:00 (66/484): texlive-fancyvrb-20200406-25.el9.noar 160 kB/s | 155 kB 00:00 (67/484): texlive-sepnum-20200406-25.el9.noarch 5.8 MB/s | 359 kB 00:00 (68/484): texlive-breakurl-20200406-25.el9.noar 2.5 MB/s | 121 kB 00:00 (69/484): texlive-ec-20200406-25.el9.noarch.rpm 15 MB/s | 791 kB 00:00 (70/484): texlive-pxfonts-20200406-25.el9.noarc 16 MB/s | 943 kB 00:00 (71/484): texlive-texlive-msg-translations-2020 2.9 MB/s | 156 kB 00:00 (72/484): texlive-pst-arrow-20200406-25.el9.noa 157 kB/s | 145 kB 00:00 (73/484): texlive-collection-basic-20200406-25. 230 kB/s | 11 kB 00:00 (74/484): urw-base35-d050000l-fonts-20200910-6. 1.5 MB/s | 78 kB 00:00 (75/484): texlive-letltxmacro-20200406-25.el9.n 295 kB/s | 296 kB 00:01 (76/484): texlive-sauerj-20200406-25.el9.noarch 9.4 MB/s | 551 kB 00:00 (77/484): texlive-cmap-20200406-25.el9.noarch.r 457 kB/s | 23 kB 00:00 (78/484): texlive-xcolor-20200406-25.el9.noarch 12 MB/s | 689 kB 00:00 (79/484): libthai-devel-0.1.28-8.el9.x86_64.rpm 3.0 MB/s | 138 kB 00:00 (80/484): pixman-devel-0.40.0-5.el9.x86_64.rpm 347 kB/s | 19 kB 00:00 (81/484): texlive-mathpazo-20200406-25.el9.noar 9.2 MB/s | 453 kB 00:00 (82/484): texlive-pdftex-20200406-25.el9.x86_64 29 MB/s | 2.0 MB 00:00 (83/484): perl-XML-Parser-2.46-9.el9.x86_64.rpm 4.2 MB/s | 240 kB 00:00 (84/484): texlive-listings-20200406-25.el9.noar 30 MB/s | 2.2 MB 00:00 (85/484): texlive-chngcntr-20200406-25.el9.noar 3.7 MB/s | 242 kB 00:00 (86/484): texlive-luatexbase-20200406-25.el9.no 5.5 MB/s | 275 kB 00:00 (87/484): readline-devel-8.1-4.el9.x86_64.rpm 3.8 MB/s | 206 kB 00:00 (88/484): libXext-1.3.4-8.el9.x86_64.rpm 41 kB/s | 42 kB 00:01 (89/484): texlive-bitset-20200406-25.el9.noarch 577 kB/s | 616 kB 00:01 (90/484): urw-base35-z003-fonts-20200910-6.el9. 5.1 MB/s | 278 kB 00:00 (91/484): libthai-0.1.28-8.el9.x86_64.rpm 3.8 MB/s | 211 kB 00:00 (92/484): perl-locale-1.09-479.el9.noarch.rpm 514 kB/s | 24 kB 00:00 (93/484): texlive-cite-20200406-25.el9.noarch.r 245 kB/s | 247 kB 00:01 (94/484): texlive-marginnote-20200406-25.el9.no 4.9 MB/s | 323 kB 00:00 (95/484): texlive-mnsymbol-20200406-25.el9.noar 44 MB/s | 4.7 MB 00:00 (96/484): texlive-mathtools-20200406-25.el9.noa 857 kB/s | 989 kB 00:01 (97/484): graphite2-devel-1.3.14-9.el9.x86_64.r 547 kB/s | 24 kB 00:00 (98/484): texlive-makecmds-20200406-25.el9.noar 133 kB/s | 127 kB 00:00 (99/484): lua-posix-35.0-8.el9.x86_64.rpm 2.9 MB/s | 155 kB 00:00 (100/484): perl-libintl-perl-1.32-4.el9.x86_64. 16 MB/s | 872 kB 00:00 (101/484): texlive-marvosym-20200406-25.el9.noa 10 MB/s | 566 kB 00:00 (102/484): texlive-varwidth-20200406-25.el9.noa 48 kB/s | 42 kB 00:00 (103/484): texlive-courier-20200406-25.el9.noar 9.3 MB/s | 532 kB 00:00 (104/484): texlive-grffile-20200406-25.el9.noar 356 kB/s | 356 kB 00:01 (105/484): texlive-epsf-20200406-25.el9.noarch. 5.1 MB/s | 287 kB 00:00 (106/484): texlive-showexpl-20200406-25.el9.noa 12 MB/s | 603 kB 00:00 (107/484): texlive-kvoptions-20200406-25.el9.no 434 kB/s | 477 kB 00:01 (108/484): libX11-devel-1.7.0-7.el9.x86_64.rpm 17 MB/s | 1.1 MB 00:00 (109/484): pixman-0.40.0-5.el9.x86_64.rpm 4.6 MB/s | 272 kB 00:00 (110/484): texlive-koma-script-20200406-25.el9. 44 MB/s | 6.0 MB 00:00 (111/484): ncurses-c++-libs-6.2-8.20210508.el9. 678 kB/s | 40 kB 00:00 (112/484): mkfontscale-1.2.1-3.el9.x86_64.rpm 738 kB/s | 34 kB 00:00 (113/484): texlive-breqn-20200406-25.el9.noarch 17 MB/s | 1.0 MB 00:00 (114/484): texlive-l3backend-20200406-25.el9.no 11 MB/s | 812 kB 00:00 (115/484): libXrender-devel-0.9.10-16.el9.x86_6 310 kB/s | 18 kB 00:00 (116/484): texlive-finstrut-20200406-25.el9.noa 196 kB/s | 187 kB 00:00 (117/484): texlive-fancybox-20200406-25.el9.noa 241 kB/s | 291 kB 00:01 (118/484): texlive-pst-tools-20200406-25.el9.no 1.4 MB/s | 118 kB 00:00 (119/484): libX11-common-1.7.0-7.el9.noarch.rpm 4.2 MB/s | 210 kB 00:00 (120/484): texlive-graphics-20200406-25.el9.noa 27 MB/s | 1.9 MB 00:00 (121/484): texlive-footmisc-20200406-25.el9.noa 331 kB/s | 334 kB 00:01 (122/484): texlive-bookmark-20200406-25.el9.noa 7.4 MB/s | 477 kB 00:00 (123/484): texlive-wasy-20200406-25.el9.noarch. 6.1 MB/s | 342 kB 00:00 (124/484): pcre-devel-8.44-3.el9.3.x86_64.rpm 9.5 MB/s | 511 kB 00:00 (125/484): texlive-attachfile2-20200406-25.el9. 8.3 MB/s | 450 kB 00:00 (126/484): texlive-parskip-20200406-25.el9.noar 5.1 MB/s | 320 kB 00:00 (127/484): texlive-graphics-cfg-20200406-25.el9 16 kB/s | 15 kB 00:00 (128/484): perl-File-Copy-2.34-479.el9.noarch.r 671 kB/s | 30 kB 00:00 (129/484): perl-Text-Unidecode-1.30-16.el9.noar 4.2 MB/s | 198 kB 00:00 (130/484): texlive-atbegshi-20200406-25.el9.noa 425 kB/s | 405 kB 00:00 (131/484): texlive-knuth-local-20200406-25.el9. 901 kB/s | 47 kB 00:00 (132/484): texlive-ucharcat-20200406-25.el9.noa 304 kB/s | 168 kB 00:00 (133/484): texlive-kvsetkeys-20200406-25.el9.no 338 kB/s | 376 kB 00:01 (134/484): libXau-devel-1.0.9-8.el9.x86_64.rpm 300 kB/s | 17 kB 00:00 (135/484): libijs-0.35-15.el9.x86_64.rpm 462 kB/s | 32 kB 00:00 (136/484): texlive-graphics-def-20200406-25.el9 29 kB/s | 24 kB 00:00 (137/484): texlive-wasy-type1-20200406-25.el9.n 5.3 MB/s | 272 kB 00:00 (138/484): texlive-updmap-map-20200406-25.el9.n 6.4 MB/s | 334 kB 00:00 (139/484): texlive-texlive-en-20200406-25.el9.n 27 MB/s | 1.9 MB 00:00 (140/484): 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Running transaction test Transaction test succeeded. Running transaction Running scriptlet: texlive-base-9:20200406-25.el9.noarch 1/1 Running scriptlet: copy-jdk-configs-4.0-3.el9.noarch 1/1 Running scriptlet: java-11-openjdk-headless-1:11.0.19.0.7-1.el9_1.x86_6 1/1 Preparing : 1/1 Running scriptlet: texlive-base-9:20200406-25.el9.noarch 1/484 Installing : texlive-base-9:20200406-25.el9.noarch 1/484 Installing : texlive-lib-9:20200406-25.el9.x86_64 2/484 Installing : xorg-x11-proto-devel-2021.4-2.el9.noarch 3/484 Installing : libpng-2:1.6.37-12.el9.x86_64 4/484 Installing : nspr-4.34.0-18.el9_1.x86_64 5/484 Installing : perl-B-1.80-479.el9.x86_64 6/484 Installing : perl-Data-Dumper-2.174-462.el9.x86_64 7/484 Installing : zlib-devel-1.2.11-35.el9_1.x86_64 8/484 Installing : flexiblas-3.0.4-8.el9.x86_64 9/484 Installing : libquadmath-11.3.1-2.1.el9.x86_64 10/484 Installing : libgfortran-11.3.1-2.1.el9.x86_64 11/484 Installing : nss-util-3.79.0-18.el9_1.x86_64 12/484 Installing : libjpeg-turbo-2.0.90-6.el9_1.x86_64 13/484 Installing : 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texlive-chngcntr-9:20200406-25.el9.noarch 87/484 Verifying : texlive-luatexbase-9:20200406-25.el9.noarch 88/484 Verifying : readline-devel-8.1-4.el9.x86_64 89/484 Verifying : texlive-cite-9:20200406-25.el9.noarch 90/484 Verifying : texlive-mathtools-9:20200406-25.el9.noarch 91/484 Verifying : urw-base35-z003-fonts-20200910-6.el9.noarch 92/484 Verifying : libthai-0.1.28-8.el9.x86_64 93/484 Verifying : perl-locale-1.09-479.el9.noarch 94/484 Verifying : texlive-makecmds-9:20200406-25.el9.noarch 95/484 Verifying : texlive-marginnote-9:20200406-25.el9.noarch 96/484 Verifying : texlive-mnsymbol-9:20200406-25.el9.noarch 97/484 Verifying : graphite2-devel-1.3.14-9.el9.x86_64 98/484 Verifying : lua-posix-35.0-8.el9.x86_64 99/484 Verifying : perl-libintl-perl-1.32-4.el9.x86_64 100/484 Verifying : texlive-marvosym-9:20200406-25.el9.noarch 101/484 Verifying : texlive-grffile-9:20200406-25.el9.noarch 102/484 Verifying : texlive-varwidth-9:20200406-25.el9.noarch 103/484 Verifying : texlive-kvoptions-9:20200406-25.el9.noarch 104/484 Verifying : texlive-courier-9:20200406-25.el9.noarch 105/484 Verifying : texlive-epsf-9:20200406-25.el9.noarch 106/484 Verifying : texlive-fancybox-9:20200406-25.el9.noarch 107/484 Verifying : texlive-showexpl-9:20200406-25.el9.noarch 108/484 Verifying : libX11-devel-1.7.0-7.el9.x86_64 109/484 Verifying : pixman-0.40.0-5.el9.x86_64 110/484 Verifying : texlive-finstrut-9:20200406-25.el9.noarch 111/484 Verifying : texlive-koma-script-9:20200406-25.el9.noarch 112/484 Verifying : ncurses-c++-libs-6.2-8.20210508.el9.x86_64 113/484 Verifying : mkfontscale-1.2.1-3.el9.x86_64 114/484 Verifying : texlive-breqn-9:20200406-25.el9.noarch 115/484 Verifying : texlive-l3backend-9:20200406-25.el9.noarch 116/484 Verifying : libXrender-devel-0.9.10-16.el9.x86_64 117/484 Verifying : texlive-footmisc-9:20200406-25.el9.noarch 118/484 Verifying : texlive-graphics-cfg-9:20200406-25.el9.noarch 119/484 Verifying : texlive-pst-tools-9:20200406-25.el9.noarch 120/484 Verifying : libX11-common-1.7.0-7.el9.noarch 121/484 Verifying : texlive-graphics-9:20200406-25.el9.noarch 122/484 Verifying : texlive-atbegshi-9:20200406-25.el9.noarch 123/484 Verifying : texlive-bookmark-9:20200406-25.el9.noarch 124/484 Verifying : texlive-wasy-9:20200406-25.el9.noarch 125/484 Verifying : pcre-devel-8.44-3.el9.3.x86_64 126/484 Verifying : texlive-attachfile2-9:20200406-25.el9.noarch 127/484 Verifying : texlive-parskip-9:20200406-25.el9.noarch 128/484 Verifying : texlive-kvsetkeys-9:20200406-25.el9.noarch 129/484 Verifying : perl-File-Copy-2.34-479.el9.noarch 130/484 Verifying : perl-Text-Unidecode-1.30-16.el9.noarch 131/484 Verifying : texlive-ucharcat-9:20200406-25.el9.noarch 132/484 Verifying : texlive-knuth-local-9:20200406-25.el9.noarch 133/484 Verifying : texlive-graphics-def-9:20200406-25.el9.noarch 134/484 Verifying : texlive-latexbug-9:20200406-25.el9.noarch 135/484 Verifying : libXau-devel-1.0.9-8.el9.x86_64 136/484 Verifying : libijs-0.35-15.el9.x86_64 137/484 Verifying : texlive-luahbtex-9:20200406-25.el9.x86_64 138/484 Verifying : texlive-wasy-type1-9:20200406-25.el9.noarch 139/484 Verifying : texlive-updmap-map-9:20200406-25.el9.noarch 140/484 Verifying : texlive-texlive-en-9:20200406-25.el9.noarch 141/484 Verifying : texlive-changepage-9:20200406-25.el9.noarch 142/484 Verifying : texlive-ms-9:20200406-25.el9.noarch 143/484 Verifying : texlive-base-9:20200406-25.el9.noarch 144/484 Verifying : libXft-2.3.3-8.el9.x86_64 145/484 Verifying : texlive-xdvi-9:20200406-25.el9.x86_64 146/484 Verifying : texlive-grfext-9:20200406-25.el9.noarch 147/484 Verifying : texlive-paralist-9:20200406-25.el9.noarch 148/484 Verifying : texlive-section-9:20200406-25.el9.noarch 149/484 Verifying : texlive-ifplatform-9:20200406-25.el9.noarch 150/484 Verifying : texlive-geometry-9:20200406-25.el9.noarch 151/484 Verifying : texlive-colortbl-9:20200406-25.el9.noarch 152/484 Verifying : texlive-placeins-9:20200406-25.el9.noarch 153/484 Verifying : perl-Unicode-Normalize-1.27-461.el9.x86_64 154/484 Verifying : libdatrie-0.2.13-4.el9.x86_64 155/484 Verifying : emacs-filesystem-1:27.2-6.el9.noarch 156/484 Verifying : texlive-collection-latex-9:20200406-25.el9.noarc 157/484 Verifying : perl-DynaLoader-1.47-479.el9.x86_64 158/484 Verifying : texlive-enctex-9:20200406-25.el9.noarch 159/484 Verifying : langpacks-core-font-en-3.0-16.el9.noarch 160/484 Verifying : texlive-mflogo-9:20200406-25.el9.noarch 161/484 Verifying : flexiblas-3.0.4-8.el9.x86_64 162/484 Verifying : texlive-memoir-9:20200406-25.el9.noarch 163/484 Verifying : ghostscript-tools-fonts-9.54.0-7.el9.x86_64 164/484 Verifying : texlive-fix2col-9:20200406-25.el9.noarch 165/484 Verifying : urw-base35-nimbus-sans-fonts-20200910-6.el9.noar 166/484 Verifying : libtool-2.4.6-45.el9.x86_64 167/484 Verifying : texlive-texlive-scripts-extra-9:20200406-25.el9. 168/484 Verifying : texlive-rsfs-9:20200406-25.el9.noarch 169/484 Verifying : texlive-fancyref-9:20200406-25.el9.noarch 170/484 Verifying : brotli-devel-1.0.9-6.el9.x86_64 171/484 Verifying : texlive-bera-9:20200406-25.el9.noarch 172/484 Verifying : bzip2-devel-1.0.8-8.el9.x86_64 173/484 Verifying : texlive-pstricks-add-9:20200406-25.el9.noarch 174/484 Verifying : texlive-minitoc-9:20200406-25.el9.noarch 175/484 Verifying : libmpc-1.2.1-4.el9.x86_64 176/484 Verifying : texlive-eurosym-9:20200406-25.el9.noarch 177/484 Verifying : texlive-euenc-9:20200406-25.el9.noarch 178/484 Verifying : texlive-pst-fill-9:20200406-25.el9.noarch 179/484 Verifying : texlive-polyglossia-9:20200406-25.el9.noarch 180/484 Verifying : texlive-psnfss-9:20200406-25.el9.noarch 181/484 Verifying : texlive-pst-node-9:20200406-25.el9.noarch 182/484 Verifying : texlive-texlive.infra-9:20200406-25.el9.noarch 183/484 Verifying : urw-base35-p052-fonts-20200910-6.el9.noarch 184/484 Verifying : texlive-pst-3d-9:20200406-25.el9.noarch 185/484 Verifying : texlive-collection-latexrecommended-9:20200406-2 186/484 Verifying : texlive-oberdiek-9:20200406-25.el9.noarch 187/484 Verifying : libICE-1.0.10-8.el9.x86_64 188/484 Verifying : texlive-ltxcmds-9:20200406-25.el9.noarch 189/484 Verifying : automake-1.16.2-6.el9.noarch 190/484 Verifying : texlive-texlive-docindex-9:20200406-25.el9.noarc 191/484 Verifying : zziplib-0.13.71-9.el9.x86_64 192/484 Verifying : texlive-booktabs-9:20200406-25.el9.noarch 193/484 Verifying : ncurses-devel-6.2-8.20210508.el9.x86_64 194/484 Verifying : texlive-mdwtools-9:20200406-25.el9.noarch 195/484 Verifying : texlive-natbib-9:20200406-25.el9.noarch 196/484 Verifying : cmake-filesystem-3.20.2-7.el9.x86_64 197/484 Verifying : texlive-beton-9:20200406-25.el9.noarch 198/484 Verifying : texlive-sansmathaccent-9:20200406-25.el9.noarch 199/484 Verifying : texlive-bookman-9:20200406-25.el9.noarch 200/484 Verifying : libxcrypt-devel-4.4.18-3.el9.x86_64 201/484 Verifying : pcre-cpp-8.44-3.el9.3.x86_64 202/484 Verifying : lcms2-2.12-3.el9.x86_64 203/484 Verifying : adobe-mappings-cmap-20171205-12.el9.noarch 204/484 Verifying : texlive-lua-alt-getopt-9:20200406-25.el9.noarch 205/484 Verifying : texlive-subfig-9:20200406-25.el9.noarch 206/484 Verifying : texlive-pst-coil-9:20200406-25.el9.noarch 207/484 Verifying : texlive-txfonts-9:20200406-25.el9.noarch 208/484 Verifying : texlive-fancyhdr-9:20200406-25.el9.noarch 209/484 Verifying : texlive-kvdefinekeys-9:20200406-25.el9.noarch 210/484 Verifying : texlive-typehtml-9:20200406-25.el9.noarch 211/484 Verifying : texlive-colorprofiles-9:20200406-25.el9.noarch 212/484 Verifying : texlive-newfloat-9:20200406-25.el9.noarch 213/484 Verifying : texlive-dvips-9:20200406-25.el9.x86_64 214/484 Verifying : texlive-ltabptch-9:20200406-25.el9.noarch 215/484 Verifying : texlive-tex-9:20200406-25.el9.x86_64 216/484 Verifying : texlive-carlisle-9:20200406-25.el9.noarch 217/484 Verifying : texlive-zapfchan-9:20200406-25.el9.noarch 218/484 Verifying : ttmkfdir-3.0.9-65.el9.x86_64 219/484 Verifying : libX11-xcb-1.7.0-7.el9.x86_64 220/484 Verifying : texlive-ae-9:20200406-25.el9.noarch 221/484 Verifying : texlive-refcount-9:20200406-25.el9.noarch 222/484 Verifying : texlive-mfnfss-9:20200406-25.el9.noarch 223/484 Verifying : perl-open-1.12-479.el9.noarch 224/484 Verifying : texlive-hycolor-9:20200406-25.el9.noarch 225/484 Verifying : texlive-kastrup-9:20200406-25.el9.noarch 226/484 Verifying : libgs-9.54.0-7.el9.x86_64 227/484 Verifying : texlive-uniquecounter-9:20200406-25.el9.noarch 228/484 Verifying : libicu-devel-67.1-9.el9.x86_64 229/484 Verifying : texlive-metafont-9:20200406-25.el9.x86_64 230/484 Verifying : poppler-data-0.4.9-9.el9.noarch 231/484 Verifying : texlive-eso-pic-9:20200406-25.el9.noarch 232/484 Verifying : texlive-xetex-9:20200406-25.el9.x86_64 233/484 Verifying : urw-base35-gothic-fonts-20200910-6.el9.noarch 234/484 Verifying : texlive-babelbib-9:20200406-25.el9.noarch 235/484 Verifying : texlive-jknapltx-9:20200406-25.el9.noarch 236/484 Verifying : texlive-bigintcalc-9:20200406-25.el9.noarch 237/484 Verifying : texlive-anysize-9:20200406-25.el9.noarch 238/484 Verifying : texlive-etex-pkg-9:20200406-25.el9.noarch 239/484 Verifying : openblas-openmp-0.3.15-3.el9.x86_64 240/484 Verifying : texlive-titlesec-9:20200406-25.el9.noarch 241/484 Verifying : libXi-1.7.10-8.el9.x86_64 242/484 Verifying : texlive-hyph-utf8-9:20200406-25.el9.noarch 243/484 Verifying : texlive-times-9:20200406-25.el9.noarch 244/484 Verifying : urw-base35-nimbus-mono-ps-fonts-20200910-6.el9.n 245/484 Verifying : texlive-collection-fontsrecommended-9:20200406-2 246/484 Verifying : texlive-index-9:20200406-25.el9.noarch 247/484 Verifying : texlive-translator-9:20200406-25.el9.noarch 248/484 Verifying : texlive-latexconfig-9:20200406-25.el9.noarch 249/484 Verifying : libX11-1.7.0-7.el9.x86_64 250/484 Verifying : texlive-amscls-9:20200406-25.el9.noarch 251/484 Verifying : texlive-modes-9:20200406-25.el9.noarch 252/484 Verifying : texlive-mflogo-font-9:20200406-25.el9.noarch 253/484 Verifying : libSM-devel-1.2.3-10.el9.x86_64 254/484 Verifying : texlive-thumbpdf-9:20200406-25.el9.noarch 255/484 Verifying : cairo-devel-1.17.4-7.el9.x86_64 256/484 Verifying : libXext-devel-1.3.4-8.el9.x86_64 257/484 Verifying : texlive-manfnt-font-9:20200406-25.el9.noarch 258/484 Verifying : texlive-xltxtra-9:20200406-25.el9.noarch 259/484 Verifying : texlive-tools-9:20200406-25.el9.noarch 260/484 Verifying : texlive-parallel-9:20200406-25.el9.noarch 261/484 Verifying : texlive-euro-9:20200406-25.el9.noarch 262/484 Verifying : libpng-devel-2:1.6.37-12.el9.x86_64 263/484 Verifying : texlive-pslatex-9:20200406-25.el9.noarch 264/484 Verifying : texlive-ltxmisc-9:20200406-25.el9.noarch 265/484 Verifying : texlive-amsfonts-9:20200406-25.el9.noarch 266/484 Verifying : texlive-soul-9:20200406-25.el9.noarch 267/484 Verifying : urw-base35-fonts-20200910-6.el9.noarch 268/484 Verifying : urw-base35-c059-fonts-20200910-6.el9.noarch 269/484 Verifying : libSM-1.2.3-10.el9.x86_64 270/484 Verifying : texlive-fpl-9:20200406-25.el9.noarch 271/484 Verifying : texlive-rcs-9:20200406-25.el9.noarch 272/484 Verifying : pcre-utf16-8.44-3.el9.3.x86_64 273/484 Verifying : pango-devel-1.48.7-2.el9.x86_64 274/484 Verifying : libpaper-1.1.28-4.el9.x86_64 275/484 Verifying : perl-XML-XPath-1.44-11.el9.noarch 276/484 Verifying : autoconf-2.69-38.el9.noarch 277/484 Verifying : sysprof-capture-devel-3.40.1-3.el9.x86_64 278/484 Verifying : texlive-pst-tree-9:20200406-25.el9.noarch 279/484 Verifying : texlive-tex-gyre-9:20200406-25.el9.noarch 280/484 Verifying : texlive-utopia-9:20200406-25.el9.noarch 281/484 Verifying : texlive-tex-gyre-math-9:20200406-25.el9.noarch 282/484 Verifying : libXcomposite-0.4.5-7.el9.x86_64 283/484 Verifying : texlive-l3experimental-9:20200406-25.el9.noarch 284/484 Verifying : ghostscript-9.54.0-7.el9.x86_64 285/484 Verifying : texlive-microtype-9:20200406-25.el9.noarch 286/484 Verifying : texlive-lm-math-9:20200406-25.el9.noarch 287/484 Verifying : texlive-luaotfload-9:20200406-25.el9.noarch 288/484 Verifying : texlive-xetexconfig-9:20200406-25.el9.noarch 289/484 Verifying : perl-File-Find-1.37-479.el9.noarch 290/484 Verifying : jbigkit-libs-2.1-23.el9.x86_64 291/484 Verifying : openblas-0.3.15-3.el9.x86_64 292/484 Verifying : texlive-l3packages-9:20200406-25.el9.noarch 293/484 Verifying : texlive-footnotehyper-9:20200406-25.el9.noarch 294/484 Verifying : texlive-pdflscape-9:20200406-25.el9.noarch 295/484 Verifying : texlive-upquote-9:20200406-25.el9.noarch 296/484 Verifying : texlive-hologo-9:20200406-25.el9.noarch 297/484 Verifying : texlive-lualibs-9:20200406-25.el9.noarch 298/484 Verifying : texlive-pst-text-9:20200406-25.el9.noarch 299/484 Verifying : texlive-xunicode-9:20200406-25.el9.noarch 300/484 Verifying : adobe-mappings-pdf-20180407-10.el9.noarch 301/484 Verifying : ghostscript-tools-printing-9.54.0-7.el9.x86_64 302/484 Verifying : texlive-auxhook-9:20200406-25.el9.noarch 303/484 Verifying : libfontenc-1.1.3-17.el9.x86_64 304/484 Verifying : texlive-psfrag-9:20200406-25.el9.noarch 305/484 Verifying : texlive-hyperref-9:20200406-25.el9.noarch 306/484 Verifying : texlive-setspace-9:20200406-25.el9.noarch 307/484 Verifying : teckit-2.5.9-8.el9.x86_64 308/484 Verifying : texlive-etexcmds-9:20200406-25.el9.noarch 309/484 Verifying : urw-base35-fonts-common-20200910-6.el9.noarch 310/484 Verifying : texlive-ragged2e-9:20200406-25.el9.noarch 311/484 Verifying : texlive-infwarerr-9:20200406-25.el9.noarch 312/484 Verifying : perl-Digest-1.19-4.el9.noarch 313/484 Verifying : texlive-babel-9:20200406-25.el9.noarch 314/484 Verifying : texlive-pdfcolmk-9:20200406-25.el9.noarch 315/484 Verifying : texlive-ntgclass-9:20200406-25.el9.noarch 316/484 Verifying : texlive-metalogo-9:20200406-25.el9.noarch 317/484 Verifying : texlive-pst-math-9:20200406-25.el9.noarch 318/484 Verifying : texlive-lm-9:20200406-25.el9.noarch 319/484 Verifying : texlive-alphalph-9:20200406-25.el9.noarch 320/484 Verifying : texlive-etex-9:20200406-25.el9.noarch 321/484 Verifying : texlive-texlive-common-doc-9:20200406-25.el9.noa 322/484 Verifying : xml-common-0.6.3-58.el9.noarch 323/484 Verifying : texlive-filecontents-9:20200406-25.el9.noarch 324/484 Verifying : texlive-ctable-9:20200406-25.el9.noarch 325/484 Verifying : libXmu-1.1.3-8.el9.x86_64 326/484 Verifying : texlive-cm-super-9:20200406-25.el9.noarch 327/484 Verifying : urw-base35-standard-symbols-ps-fonts-20200910-6. 328/484 Verifying : texlive-textcase-9:20200406-25.el9.noarch 329/484 Verifying : texlive-iftex-9:20200406-25.el9.noarch 330/484 Verifying : perl-threads-1:2.25-460.el9.x86_64 331/484 Verifying : pango-1.48.7-2.el9.x86_64 332/484 Verifying : texlive-dvipdfmx-9:20200406-25.el9.x86_64 333/484 Verifying : texlive-cmextra-9:20200406-25.el9.noarch 334/484 Verifying : flexiblas-netlib-3.0.4-8.el9.x86_64 335/484 Verifying : texlive-mfware-9:20200406-25.el9.x86_64 336/484 Verifying : texlive-amsmath-9:20200406-25.el9.noarch 337/484 Verifying : google-droid-sans-fonts-20200215-11.el9.2.noarch 338/484 Verifying : texlive-url-9:20200406-25.el9.noarch 339/484 Verifying : texlive-luatex-9:20200406-25.el9.x86_64 340/484 Verifying : urw-base35-nimbus-roman-fonts-20200910-6.el9.noa 341/484 Verifying : urw-base35-bookman-fonts-20200910-6.el9.noarch 342/484 Verifying : texlive-tipa-9:20200406-25.el9.noarch 343/484 Verifying : texlive-pspicture-9:20200406-25.el9.noarch 344/484 Verifying : libXrender-0.9.10-16.el9.x86_64 345/484 Verifying : texlive-notoccite-9:20200406-25.el9.noarch 346/484 Verifying : texlive-fontspec-9:20200406-25.el9.noarch 347/484 Verifying : texlive-catchfile-9:20200406-25.el9.noarch 348/484 Verifying : perl-FileHandle-2.03-479.el9.noarch 349/484 Verifying : texlive-rerunfilecheck-9:20200406-25.el9.noarch 350/484 Verifying : texlive-euler-9:20200406-25.el9.noarch 351/484 Verifying : texlive-lib-9:20200406-25.el9.x86_64 352/484 Verifying : cairo-1.17.4-7.el9.x86_64 353/484 Verifying : texlive-extsizes-9:20200406-25.el9.noarch 354/484 Verifying : texlive-stringenc-9:20200406-25.el9.noarch 355/484 Verifying : texlive-bibtex-9:20200406-25.el9.x86_64 356/484 Verifying : texlive-csquotes-9:20200406-25.el9.noarch 357/484 Verifying : texlive-xkeyval-9:20200406-25.el9.noarch 358/484 Verifying : libXaw-1.0.13-19.el9.x86_64 359/484 Verifying : texlive-crop-9:20200406-25.el9.noarch 360/484 Verifying : texlive-charter-9:20200406-25.el9.noarch 361/484 Verifying : texlive-hobsub-9:20200406-25.el9.noarch 362/484 Verifying : texlive-zref-9:20200406-25.el9.noarch 363/484 Verifying : texlive-knuth-lib-9:20200406-25.el9.noarch 364/484 Verifying : libffi-devel-3.4.2-7.el9.x86_64 365/484 Verifying : texlive-wasysym-9:20200406-25.el9.noarch 366/484 Verifying : texlive-fp-9:20200406-25.el9.noarch 367/484 Verifying : texlive-qstest-9:20200406-25.el9.noarch 368/484 Verifying : texlive-bidi-9:20200406-25.el9.noarch 369/484 Verifying : texlive-tex-ini-files-9:20200406-25.el9.noarch 370/484 Verifying : texlive-glyphlist-9:20200406-25.el9.noarch 371/484 Verifying : libxcb-1.13.1-9.el9.x86_64 372/484 Verifying : perl-base-2.27-479.el9.noarch 373/484 Verifying : texlive-lineno-9:20200406-25.el9.noarch 374/484 Verifying : perl-encoding-4:3.00-462.el9.x86_64 375/484 Verifying : texlive-epstopdf-pkg-9:20200406-25.el9.noarch 376/484 Verifying : texlive-pst-grad-9:20200406-25.el9.noarch 377/484 Verifying : libwebp-1.2.0-3.el9.x86_64 378/484 Verifying : texlive-avantgar-9:20200406-25.el9.noarch 379/484 Verifying : texlive-ifmtarg-9:20200406-25.el9.noarch 380/484 Verifying : texlive-multido-9:20200406-25.el9.noarch 381/484 Verifying : texlive-unicode-math-9:20200406-25.el9.noarch 382/484 Verifying : texlive-babel-english-9:20200406-25.el9.noarch 383/484 Verifying : texlive-plain-9:20200406-25.el9.noarch 384/484 Verifying : texlive-palatino-9:20200406-25.el9.noarch 385/484 Verifying : texlive-gettitlestring-9:20200406-25.el9.noarch 386/484 Verifying : javapackages-filesystem-6.0.0-3.el9.noarch 387/484 Verifying : texlive-etoolbox-9:20200406-25.el9.noarch 388/484 Verifying : texlive-hyphenex-9:20200406-25.el9.noarch 389/484 Verifying : m4-1.4.19-1.el9.x86_64 390/484 Verifying : texlive-helvetic-9:20200406-25.el9.noarch 391/484 Verifying : texlive-latex-9:20200406-25.el9.noarch 392/484 Verifying : texlive-beamer-9:20200406-25.el9.noarch 393/484 Verifying : texlive-ucs-9:20200406-25.el9.noarch 394/484 Verifying : texlive-mptopdf-9:20200406-25.el9.noarch 395/484 Verifying : libXau-1.0.9-8.el9.x86_64 396/484 Verifying : texlive-latex-fonts-9:20200406-25.el9.noarch 397/484 Verifying : texlive-pgf-9:20200406-25.el9.noarch 398/484 Verifying : texlive-seminar-9:20200406-25.el9.noarch 399/484 Verifying : texlive-enumitem-9:20200406-25.el9.noarch 400/484 Verifying : libICE-devel-1.0.10-8.el9.x86_64 401/484 Verifying : texlive-pstricks-9:20200406-25.el9.noarch 402/484 Verifying : texlive-symbol-9:20200406-25.el9.noarch 403/484 Verifying : libXft-devel-2.3.3-8.el9.x86_64 404/484 Verifying : texlive-sansmath-9:20200406-25.el9.noarch 405/484 Verifying : perl-B-1.80-479.el9.x86_64 406/484 Verifying : texlive-hyphen-base-9:20200406-25.el9.noarch 407/484 Verifying : xz-devel-5.2.5-8.el9_0.x86_64 408/484 Verifying : adobe-mappings-cmap-deprecated-20171205-12.el9.n 409/484 Verifying : perl-threads-shared-1.61-460.el9.x86_64 410/484 Verifying : perl-File-Compare-1.100.600-479.el9.noarch 411/484 Verifying : texlive-unicode-data-9:20200406-25.el9.noarch 412/484 Verifying : perl-Thread-Queue-3.14-460.el9.noarch 413/484 Verifying : texlive-cm-9:20200406-25.el9.noarch 414/484 Verifying : texlive-float-9:20200406-25.el9.noarch 415/484 Verifying : texlive-attachfile-9:20200406-25.el9.noarch 416/484 Verifying : xorg-x11-fonts-Type1-7.5-33.el9.noarch 417/484 Verifying : texlive-currfile-9:20200406-25.el9.noarch 418/484 Verifying : texlive-pdftexcmds-9:20200406-25.el9.noarch 419/484 Verifying : texlive-xifthen-9:20200406-25.el9.noarch 420/484 Verifying : pcre2-utf16-10.40-2.el9.x86_64 421/484 Verifying : annobin-10.73-3.el9.x86_64 422/484 Verifying : valgrind-1:3.19.0-3.el9.x86_64 423/484 Verifying : fribidi-devel-1.0.10-6.el9.2.x86_64 424/484 Verifying : fribidi-1.0.10-6.el9.2.x86_64 425/484 Verifying : libquadmath-devel-11.3.1-2.1.el9.x86_64 426/484 Verifying : gcc-plugin-annobin-11.3.1-2.1.el9.x86_64 427/484 Verifying : valgrind-devel-1:3.19.0-3.el9.x86_64 428/484 Verifying : libselinux-devel-3.4-3.el9.x86_64 429/484 Verifying : harfbuzz-devel-2.7.4-8.el9.x86_64 430/484 Verifying : pcre2-utf32-10.40-2.el9.x86_64 431/484 Verifying : freetype-devel-2.10.4-9.el9.x86_64 432/484 Verifying : poppler-21.01.0-13.el9.x86_64 433/484 Verifying : openjpeg2-2.4.0-7.el9.x86_64 434/484 Verifying : libsepol-devel-3.4-1.1.el9.x86_64 435/484 Verifying : cpp-11.3.1-2.1.el9.x86_64 436/484 Verifying : alsa-lib-1.2.7.2-1.el9.x86_64 437/484 Verifying : tk-1:8.6.10-9.el9.x86_64 438/484 Verifying : libstdc++-devel-11.3.1-2.1.el9.x86_64 439/484 Verifying : gcc-11.3.1-2.1.el9.x86_64 440/484 Verifying : llvm-libs-14.0.6-1.el9.x86_64 441/484 Verifying : tk-devel-1:8.6.10-9.el9.x86_64 442/484 Verifying : gcc-gfortran-11.3.1-2.1.el9.x86_64 443/484 Verifying : libblkid-devel-2.37.4-9.el9.x86_64 444/484 Verifying : tcl-devel-1:8.6.10-7.el9.x86_64 445/484 Verifying : gcc-c++-11.3.1-2.1.el9.x86_64 446/484 Verifying : harfbuzz-icu-2.7.4-8.el9.x86_64 447/484 Verifying : libmount-devel-2.37.4-9.el9.x86_64 448/484 Verifying : pcre2-devel-10.40-2.el9.x86_64 449/484 Verifying : libXpm-3.5.13-8.el9_1.x86_64 450/484 Verifying : glibc-headers-2.34-40.el9_1.1.x86_64 451/484 Verifying : libxml2-devel-2.9.13-3.el9_1.x86_64 452/484 Verifying : glibc-devel-2.34-40.el9_1.1.x86_64 453/484 Verifying : libjpeg-turbo-2.0.90-6.el9_1.x86_64 454/484 Verifying : fontconfig-2.14.0-2.el9_1.x86_64 455/484 Verifying : libtiff-devel-4.4.0-5.el9_1.x86_64 456/484 Verifying : fontconfig-devel-2.14.0-2.el9_1.x86_64 457/484 Verifying : libtiff-4.4.0-5.el9_1.x86_64 458/484 Verifying : libjpeg-turbo-devel-2.0.90-6.el9_1.x86_64 459/484 Verifying : zlib-devel-1.2.11-35.el9_1.x86_64 460/484 Verifying : lua-5.4.4-2.el9_1.x86_64 461/484 Verifying : tzdata-java-2023c-1.el9.noarch 462/484 Verifying : kernel-headers-5.14.0-162.23.1.el9_1.x86_64 463/484 Verifying : libcurl-devel-7.76.1-19.el9_1.2.x86_64 464/484 Verifying : nss-sysinit-3.79.0-18.el9_1.x86_64 465/484 Verifying : nss-3.79.0-18.el9_1.x86_64 466/484 Verifying : nss-softokn-3.79.0-18.el9_1.x86_64 467/484 Verifying : nss-util-3.79.0-18.el9_1.x86_64 468/484 Verifying : nspr-4.34.0-18.el9_1.x86_64 469/484 Verifying : nss-softokn-freebl-3.79.0-18.el9_1.x86_64 470/484 Verifying : java-11-openjdk-devel-1:11.0.19.0.7-1.el9_1.x86_ 471/484 Verifying : java-11-openjdk-headless-1:11.0.19.0.7-1.el9_1.x 472/484 Verifying : java-11-openjdk-1:11.0.19.0.7-1.el9_1.x86_64 473/484 Verifying : openblas-openmp64-0.3.15-3.el9.x86_64 474/484 Verifying : texinfo-tex-6.7-15.el9.x86_64 475/484 Verifying : flexiblas-netlib64-3.0.4-8.el9.x86_64 476/484 Verifying : texinfo-6.7-15.el9.x86_64 477/484 Verifying : flexiblas-devel-3.0.4-8.el9.x86_64 478/484 Verifying : perl-Unicode-EastAsianWidth-12.0-7.el9.noarch 479/484 Verifying : flexiblas-openblas-openmp64-3.0.4-8.el9.x86_64 480/484 Verifying : libtirpc-devel-1.3.3-0.el9.x86_64 481/484 Verifying : tre-0.8.0-34.20140228gitc2f5d13.el9.x86_64 482/484 Verifying : tre-common-0.8.0-34.20140228gitc2f5d13.el9.noarc 483/484 Verifying : tre-devel-0.8.0-34.20140228gitc2f5d13.el9.x86_64 484/484 Installed products updated. Installed: adobe-mappings-cmap-20171205-12.el9.noarch adobe-mappings-cmap-deprecated-20171205-12.el9.noarch adobe-mappings-pdf-20180407-10.el9.noarch alsa-lib-1.2.7.2-1.el9.x86_64 annobin-10.73-3.el9.x86_64 autoconf-2.69-38.el9.noarch automake-1.16.2-6.el9.noarch avahi-libs-0.8-12.el9.x86_64 brotli-1.0.9-6.el9.x86_64 brotli-devel-1.0.9-6.el9.x86_64 bzip2-devel-1.0.8-8.el9.x86_64 cairo-1.17.4-7.el9.x86_64 cairo-devel-1.17.4-7.el9.x86_64 cmake-filesystem-3.20.2-7.el9.x86_64 copy-jdk-configs-4.0-3.el9.noarch cpp-11.3.1-2.1.el9.x86_64 crypto-policies-scripts-20220815-1.git0fbe86f.el9.noarch cups-libs-1:2.3.3op2-16.el9.x86_64 dbus-libs-1:1.12.20-7.el9_1.x86_64 dejavu-sans-fonts-2.37-18.el9.noarch emacs-filesystem-1:27.2-6.el9.noarch expat-2.4.9-1.el9_1.1.x86_64 flexiblas-3.0.4-8.el9.x86_64 flexiblas-devel-3.0.4-8.el9.x86_64 flexiblas-netlib-3.0.4-8.el9.x86_64 flexiblas-netlib64-3.0.4-8.el9.x86_64 flexiblas-openblas-openmp-3.0.4-8.el9.x86_64 flexiblas-openblas-openmp64-3.0.4-8.el9.x86_64 fontconfig-2.14.0-2.el9_1.x86_64 fontconfig-devel-2.14.0-2.el9_1.x86_64 fonts-filesystem-1:2.0.5-7.el9.1.noarch freetype-2.10.4-9.el9.x86_64 freetype-devel-2.10.4-9.el9.x86_64 fribidi-1.0.10-6.el9.2.x86_64 fribidi-devel-1.0.10-6.el9.2.x86_64 gcc-11.3.1-2.1.el9.x86_64 gcc-c++-11.3.1-2.1.el9.x86_64 gcc-gfortran-11.3.1-2.1.el9.x86_64 gcc-plugin-annobin-11.3.1-2.1.el9.x86_64 gettext-0.21-7.el9.x86_64 gettext-libs-0.21-7.el9.x86_64 ghostscript-9.54.0-7.el9.x86_64 ghostscript-tools-fonts-9.54.0-7.el9.x86_64 ghostscript-tools-printing-9.54.0-7.el9.x86_64 glib2-2.68.4-5.el9.x86_64 glib2-devel-2.68.4-5.el9.x86_64 glibc-devel-2.34-40.el9_1.1.x86_64 glibc-headers-2.34-40.el9_1.1.x86_64 gnutls-3.7.6-18.el9_1.x86_64 google-droid-sans-fonts-20200215-11.el9.2.noarch graphite2-1.3.14-9.el9.x86_64 graphite2-devel-1.3.14-9.el9.x86_64 harfbuzz-2.7.4-8.el9.x86_64 harfbuzz-devel-2.7.4-8.el9.x86_64 harfbuzz-icu-2.7.4-8.el9.x86_64 java-11-openjdk-1:11.0.19.0.7-1.el9_1.x86_64 java-11-openjdk-devel-1:11.0.19.0.7-1.el9_1.x86_64 java-11-openjdk-headless-1:11.0.19.0.7-1.el9_1.x86_64 javapackages-filesystem-6.0.0-3.el9.noarch jbig2dec-libs-0.19-6.el9.x86_64 jbigkit-libs-2.1-23.el9.x86_64 kernel-headers-5.14.0-162.23.1.el9_1.x86_64 langpacks-core-font-en-3.0-16.el9.noarch lcms2-2.12-3.el9.x86_64 libICE-1.0.10-8.el9.x86_64 libICE-devel-1.0.10-8.el9.x86_64 libSM-1.2.3-10.el9.x86_64 libSM-devel-1.2.3-10.el9.x86_64 libX11-1.7.0-7.el9.x86_64 libX11-common-1.7.0-7.el9.noarch libX11-devel-1.7.0-7.el9.x86_64 libX11-xcb-1.7.0-7.el9.x86_64 libXau-1.0.9-8.el9.x86_64 libXau-devel-1.0.9-8.el9.x86_64 libXaw-1.0.13-19.el9.x86_64 libXcomposite-0.4.5-7.el9.x86_64 libXext-1.3.4-8.el9.x86_64 libXext-devel-1.3.4-8.el9.x86_64 libXft-2.3.3-8.el9.x86_64 libXft-devel-2.3.3-8.el9.x86_64 libXi-1.7.10-8.el9.x86_64 libXmu-1.1.3-8.el9.x86_64 libXmu-devel-1.1.3-8.el9.x86_64 libXpm-3.5.13-8.el9_1.x86_64 libXrender-0.9.10-16.el9.x86_64 libXrender-devel-0.9.10-16.el9.x86_64 libXt-1.2.0-6.el9.x86_64 libXt-devel-1.2.0-6.el9.x86_64 libXtst-1.2.3-16.el9.x86_64 libblkid-devel-2.37.4-9.el9.x86_64 libcurl-devel-7.76.1-19.el9_1.2.x86_64 libdatrie-0.2.13-4.el9.x86_64 libdatrie-devel-0.2.13-4.el9.x86_64 libedit-3.1-37.20210216cvs.el9.x86_64 libffi-devel-3.4.2-7.el9.x86_64 libfontenc-1.1.3-17.el9.x86_64 libgfortran-11.3.1-2.1.el9.x86_64 libgs-9.54.0-7.el9.x86_64 libicu-67.1-9.el9.x86_64 libicu-devel-67.1-9.el9.x86_64 libijs-0.35-15.el9.x86_64 libjpeg-turbo-2.0.90-6.el9_1.x86_64 libjpeg-turbo-devel-2.0.90-6.el9_1.x86_64 libmount-devel-2.37.4-9.el9.x86_64 libmpc-1.2.1-4.el9.x86_64 libpaper-1.1.28-4.el9.x86_64 libpng-2:1.6.37-12.el9.x86_64 libpng-devel-2:1.6.37-12.el9.x86_64 libquadmath-11.3.1-2.1.el9.x86_64 libquadmath-devel-11.3.1-2.1.el9.x86_64 libselinux-devel-3.4-3.el9.x86_64 libsepol-devel-3.4-1.1.el9.x86_64 libstdc++-devel-11.3.1-2.1.el9.x86_64 libthai-0.1.28-8.el9.x86_64 libthai-devel-0.1.28-8.el9.x86_64 libtiff-4.4.0-5.el9_1.x86_64 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texlive-unicode-math-9:20200406-25.el9.noarch texlive-uniquecounter-9:20200406-25.el9.noarch texlive-updmap-map-9:20200406-25.el9.noarch texlive-upquote-9:20200406-25.el9.noarch texlive-url-9:20200406-25.el9.noarch texlive-utopia-9:20200406-25.el9.noarch texlive-varwidth-9:20200406-25.el9.noarch texlive-wasy-9:20200406-25.el9.noarch texlive-wasy-type1-9:20200406-25.el9.noarch texlive-wasysym-9:20200406-25.el9.noarch texlive-xcolor-9:20200406-25.el9.noarch texlive-xdvi-9:20200406-25.el9.x86_64 texlive-xetex-9:20200406-25.el9.x86_64 texlive-xetexconfig-9:20200406-25.el9.noarch texlive-xifthen-9:20200406-25.el9.noarch texlive-xkeyval-9:20200406-25.el9.noarch texlive-xltxtra-9:20200406-25.el9.noarch texlive-xunicode-9:20200406-25.el9.noarch texlive-zapfchan-9:20200406-25.el9.noarch texlive-zapfding-9:20200406-25.el9.noarch texlive-zref-9:20200406-25.el9.noarch tk-1:8.6.10-9.el9.x86_64 tk-devel-1:8.6.10-9.el9.x86_64 tre-0.8.0-34.20140228gitc2f5d13.el9.x86_64 tre-common-0.8.0-34.20140228gitc2f5d13.el9.noarch tre-devel-0.8.0-34.20140228gitc2f5d13.el9.x86_64 ttmkfdir-3.0.9-65.el9.x86_64 tzdata-java-2023c-1.el9.noarch urw-base35-bookman-fonts-20200910-6.el9.noarch urw-base35-c059-fonts-20200910-6.el9.noarch urw-base35-d050000l-fonts-20200910-6.el9.noarch urw-base35-fonts-20200910-6.el9.noarch urw-base35-fonts-common-20200910-6.el9.noarch urw-base35-gothic-fonts-20200910-6.el9.noarch urw-base35-nimbus-mono-ps-fonts-20200910-6.el9.noarch urw-base35-nimbus-roman-fonts-20200910-6.el9.noarch urw-base35-nimbus-sans-fonts-20200910-6.el9.noarch urw-base35-p052-fonts-20200910-6.el9.noarch urw-base35-standard-symbols-ps-fonts-20200910-6.el9.noarch urw-base35-z003-fonts-20200910-6.el9.noarch valgrind-1:3.19.0-3.el9.x86_64 valgrind-devel-1:3.19.0-3.el9.x86_64 xml-common-0.6.3-58.el9.noarch xorg-x11-fonts-Type1-7.5-33.el9.noarch xorg-x11-proto-devel-2021.4-2.el9.noarch xz-devel-5.2.5-8.el9_0.x86_64 zlib-devel-1.2.11-35.el9_1.x86_64 zziplib-0.13.71-9.el9.x86_64 Complete! Finish: build setup for R-4.3.0-0.el9~bootstrap.r84280.copr5806616.src.rpm Start: rpmbuild R-4.3.0-0.el9~bootstrap.r84280.copr5806616.src.rpm warning: Macro expanded in comment on line 45: %{version}.tar.gz Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1680912000 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.9342Sg + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf R-rc + /usr/bin/gzip -dc /builddir/build/SOURCES/R-rc_2023-04-18_r84280.tar.gz + /usr/bin/tar -xof - + STATUS=0 + '[' 0 -ne 0 ']' + cd R-rc + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + echo 'Patch #0 (R-3.3.0-fix-java_path-in-javareconf.patch):' + /usr/bin/patch --no-backup-if-mismatch -p1 -b --suffix .fixpath --fuzz=0 Patch #0 (R-3.3.0-fix-java_path-in-javareconf.patch): patching file src/scripts/javareconf.in Hunk #1 succeeded at 79 (offset 1 line). + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.6wqHGW + umask 022 + cd /builddir/build/BUILD + cd R-rc + 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'\''}' + 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 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 ' + 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 --- ./configure.backup 2023-04-13 22:16:15.000000000 +0000 +++ ./configure 2023-04-19 19:23:28.599701082 +0000 @@ -2542,7 +2542,7 @@ #ifdef __cplusplus extern "C" #endif -char $2 (); +__attribute__ ((used)) char $2 (); /* The GNU C library defines this for functions which it implements to always fail with ENOSYS. Some functions are actually named something starting with __ and the normal name is an alias. */ + /usr/bin/sed --in-place=.backup '1{$!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 2023-04-19 19:23:28.599701082 +0000 +++ ./configure 2023-04-19 19:23:28.634700683 +0000 @@ -12170,7 +12170,7 @@ # 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* .* \(.*\)$/extern char \1;/p'" @@ -59344,7 +59344,7 @@ compiler='`$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' ']' ++ 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"~' ./tools/ltmain.sh + ./configure --build=x86_64-redhat-linux-gnu --host=x86_64-redhat-linux-gnu --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 --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-system-valgrind-headers --with-lapack=flexiblas --with-blas=flexiblas --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 --enable-lto + tee CONFIGURE.log 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' configure: WARNING: --with-system-valgrind-headers is defunct 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... no checking for more... /usr/bin/more 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 5.1... 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-gnu-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 how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking whether gcc needs -traditional... no 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 how to run the C preprocessor... gcc -E looking for a modern Fortran compiler checking for x86_64-redhat-linux-gnu-gfortran... no checking for x86_64-redhat-linux-gnu-g95... no checking for x86_64-redhat-linux-gnu-xlf95... no checking for x86_64-redhat-linux-gnu-f95... no checking for x86_64-redhat-linux-gnu-fort... no checking for x86_64-redhat-linux-gnu-ifort... no checking for x86_64-redhat-linux-gnu-ifc... no checking for x86_64-redhat-linux-gnu-efc... no checking for x86_64-redhat-linux-gnu-pgfortran... no checking for x86_64-redhat-linux-gnu-pgf95... no checking for x86_64-redhat-linux-gnu-lf95... no checking for x86_64-redhat-linux-gnu-ftn... no checking for x86_64-redhat-linux-gnu-nagfor... no checking for x86_64-redhat-linux-gnu-xlf90... no checking for x86_64-redhat-linux-gnu-f90... no checking for x86_64-redhat-linux-gnu-pgf90... no checking for x86_64-redhat-linux-gnu-pghpf... no checking for x86_64-redhat-linux-gnu-epcf90... no checking for x86_64-redhat-linux-gnu-g77... no checking for x86_64-redhat-linux-gnu-xlf... no checking for x86_64-redhat-linux-gnu-f77... no checking for x86_64-redhat-linux-gnu-frt... no checking for x86_64-redhat-linux-gnu-pgf77... no checking for x86_64-redhat-linux-gnu-cf77... no checking for x86_64-redhat-linux-gnu-fort77... no checking for x86_64-redhat-linux-gnu-fl32... no checking for x86_64-redhat-linux-gnu-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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection can compile C++ code... yes checking how to run the C++ preprocessor... g++ -E checking whether __attribute__((visibility())) is supported... yes checking whether gcc accepts -fvisibility... yes checking whether g++ accepts -fvisibility... yes checking whether gfortran accepts -fvisibility... yes checking for x86_64-redhat-linux-gnu-gcc... no checking for x86_64-redhat-linux-gnu-objcc... no checking for x86_64-redhat-linux-gnu-objc... no checking for x86_64-redhat-linux-gnu-cc... no checking for x86_64-redhat-linux-gnu-CC... no checking for x86_64-redhat-linux-gnu-clang... no checking for gcc... gcc checking whether the compiler supports GNU Objective C... no checking whether gcc accepts -g... no checking whether g++ can compile ObjC++... no checking whether can compile ObjC++... no checking for Objective C++ compiler... no working ObjC++ compiler found checking whether gcc -std=gnu17 is a C17 compiler... yes checking whether gcc -std=gnu23 is a C23 compiler... no checking whether gcc -std=gnu2x is a C23 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 fgrep... /usr/bin/grep -F checking for ld used by gcc... /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-gnu-objdump... no checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for x86_64-redhat-linux-gnu-dlltool... no checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for x86_64-redhat-linux-gnu-ar... (cached) ar checking for archiver @FILE support... @ checking for x86_64-redhat-linux-gnu-strip... no checking for strip... strip checking for x86_64-redhat-linux-gnu-ranlib... no checking for ranlib... ranlib checking for gawk... gawk checking command to parse /usr/bin/nm -B output from gcc object... ./configure: line 12176: -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-gnu-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 supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... no checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc 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 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 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 supports -c -o FILE.lo... yes checking for gcc 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/11 -L/usr/lib/gcc/x86_64-redhat-linux/11/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/11/../../.. -lgfortran -lm -lquadmath checking how to get verbose linking output from gcc... -v checking for C libraries of gcc... -L/usr/lib/gcc/x86_64-redhat-linux/11 -L/usr/lib/gcc/x86_64-redhat-linux/11/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/11/../../.. -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 agree on int and double... yes checking whether gfortran and gcc 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 type of 'hidden' Fortran character lengths... size_t checking for xmkmf... no checking whether g++ supports C++11 features with -std=gnu++11... yes checking whether g++ supports C++14 features with -std=gnu++14... yes 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 for g++ -std=gnu++17 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 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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 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 library containing xdr_string... -ltirpc 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 mktime, gmtime, localtime work correctly in 2020... yes checking whether mktime sets errno... no 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 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 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 ... 7.76.1 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 special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking for _LARGEFILE_SOURCE value needed for large files... no 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... /usr/bin/paperconf 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-gnu-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... /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... 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 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection Fortran fixed-form compiler: gfortran -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules Default C++ compiler: g++ -std=gnu++17 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection C++11 compiler: g++ -std=gnu++11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection C++14 compiler: g++ -std=gnu++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection C++17 compiler: g++ -std=gnu++17 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection C++20 compiler: g++ -std=gnu++20 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection C++23 compiler: g++ -std=gnu++23 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection Fortran free-form compiler: gfortran -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules Obj-C compiler: Interfaces supported: X11, tcltk External libraries: pcre2, readline, BLAS(FlexiBlas), LAPACK(generic), tre, curl Additional capabilities: PNG, JPEG, TIFF, NLS, cairo, ICU Options enabled: shared R library, R profiling, memory profiling, static HTML 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-rc/m4' make[1]: Nothing to be done for 'R'. make[1]: Leaving directory '/builddir/build/BUILD/R-rc/m4' make[1]: Entering directory '/builddir/build/BUILD/R-rc/tools' make[1]: Nothing to be done for 'R'. make[1]: Leaving directory '/builddir/build/BUILD/R-rc/tools' make[1]: Entering directory '/builddir/build/BUILD/R-rc/doc' make[2]: Entering directory '/builddir/build/BUILD/R-rc/doc/html' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/doc/html' make[2]: Entering directory '/builddir/build/BUILD/R-rc/doc/manual' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/builddir/build/BUILD/R-rc/doc/manual' make[1]: Leaving directory '/builddir/build/BUILD/R-rc/doc' make[1]: Entering directory '/builddir/build/BUILD/R-rc/etc' make[1]: Leaving directory '/builddir/build/BUILD/R-rc/etc' make[1]: Entering directory '/builddir/build/BUILD/R-rc/share' make[1]: Leaving directory '/builddir/build/BUILD/R-rc/share' make[1]: Entering directory '/builddir/build/BUILD/R-rc/src' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/scripts' creating src/scripts/R.fe make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/scripts' mkdir -p -- ../../bin make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/scripts' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/scripts' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/include' mkdir -p -- ../../include make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/include/R_ext' mkdir -p -- ../../../include/R_ext make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/include/R_ext' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/include' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/extra' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/extra' make[2]: Entering directory '/builddir/build/BUILD/R-rc/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-rc/src/appl' gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c integrate.c -o integrate.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c interv.c -o interv.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c maxcol.c -o maxcol.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c optim.c -o optim.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pretty.c -o pretty.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c uncmin.c -o uncmin.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dchdc.f -o dchdc.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dchdc.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dpbfa.f -o dpbfa.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dpbfa.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dpbsl.f -o dpbsl.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dpbsl.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dpoco.f -o dpoco.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dpoco.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dpodi.f -o dpodi.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dpodi.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dpofa.f -o dpofa.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dpofa.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dposl.f -o dposl.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dposl.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dqrdc.f -o dqrdc.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dqrdc.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dqrdc2.f -o dqrdc2.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dqrdc2.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dqrls.f -o dqrls.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dqrls.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dqrsl.f -o dqrsl.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dqrsl.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dqrutl.f -o dqrutl.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dqrutl.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dsvdc.f -o dsvdc.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dsvdc.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dtrco.f -o dtrco.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dtrco.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dtrsl.f -o dtrsl.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dtrsl.f: Warning: -D_GLIBCXX_ASSERTIONS not defined ar -cr libappl.a integrate.o interv.o maxcol.o optim.o pretty.o uncmin.o dchdc.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-rc/src/appl' #@make install-Linpack make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/appl' make[2]: Entering directory '/builddir/build/BUILD/R-rc/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-rc/src/nmath' gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c mlutils.c -o mlutils.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c d1mach.c -o d1mach.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c i1mach.c -o i1mach.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c fmax2.c -o fmax2.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c fmin2.c -o fmin2.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c fprec.c -o fprec.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c fround.c -o fround.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ftrunc.c -o ftrunc.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sign.c -o sign.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c fsign.c -o fsign.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c imax2.c -o imax2.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c imin2.c -o imin2.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c chebyshev.c -o chebyshev.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c log1p.c -o log1p.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c lgammacor.c -o lgammacor.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c gammalims.c -o gammalims.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c stirlerr.c -o stirlerr.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c bd0.c -o bd0.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c gamma.c -o gamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c lgamma.c -o lgamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c gamma_cody.c -o gamma_cody.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c beta.c -o beta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c lbeta.c -o lbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c polygamma.c -o polygamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c cospi.c -o cospi.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c bessel_i.c -o bessel_i.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c bessel_j.c -o bessel_j.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c bessel_k.c -o bessel_k.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c bessel_y.c -o bessel_y.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c choose.c -o choose.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c snorm.c -o snorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sexp.c -o sexp.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dgamma.c -o dgamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pgamma.c -o pgamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qgamma.c -o qgamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rgamma.c -o rgamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dbeta.c -o dbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pbeta.c -o pbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qbeta.c -o qbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rbeta.c -o rbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dunif.c -o dunif.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c punif.c -o punif.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qunif.c -o qunif.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c runif.c -o runif.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dnorm.c -o dnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pnorm.c -o pnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qnorm.c -o qnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rnorm.c -o rnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dlnorm.c -o dlnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c plnorm.c -o plnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qlnorm.c -o qlnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rlnorm.c -o rlnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c df.c -o df.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pf.c -o pf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qf.c -o qf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rf.c -o rf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dnf.c -o dnf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dt.c -o dt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pt.c -o pt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qt.c -o qt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rt.c -o rt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dnt.c -o dnt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dchisq.c -o dchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pchisq.c -o pchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qchisq.c -o qchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rchisq.c -o rchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rnchisq.c -o rnchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dbinom.c -o dbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pbinom.c -o pbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qbinom.c -o qbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rbinom.c -o rbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rmultinom.c -o rmultinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dcauchy.c -o dcauchy.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pcauchy.c -o pcauchy.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qcauchy.c -o qcauchy.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rcauchy.c -o rcauchy.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dexp.c -o dexp.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pexp.c -o pexp.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qexp.c -o qexp.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rexp.c -o rexp.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dgeom.c -o dgeom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pgeom.c -o pgeom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qgeom.c -o qgeom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rgeom.c -o rgeom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dhyper.c -o dhyper.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c phyper.c -o phyper.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qhyper.c -o qhyper.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rhyper.c -o rhyper.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dnbinom.c -o dnbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pnbinom.c -o pnbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qnbinom.c -o qnbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qnbinom_mu.c -o qnbinom_mu.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rnbinom.c -o rnbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dpois.c -o dpois.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ppois.c -o ppois.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qpois.c -o qpois.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rpois.c -o rpois.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dweibull.c -o dweibull.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pweibull.c -o pweibull.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qweibull.c -o qweibull.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rweibull.c -o rweibull.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dlogis.c -o dlogis.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c plogis.c -o plogis.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qlogis.c -o qlogis.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rlogis.c -o rlogis.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dnchisq.c -o dnchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pnchisq.c -o pnchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qnchisq.c -o qnchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dnbeta.c -o dnbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pnbeta.c -o pnbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qnbeta.c -o qnbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pnf.c -o pnf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pnt.c -o pnt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qnf.c -o qnf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qnt.c -o qnt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ptukey.c -o ptukey.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qtukey.c -o qtukey.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c toms708.c -o toms708.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c wilcox.c -o wilcox.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -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-rc/src/nmath' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/nmath' make[2]: Entering directory '/builddir/build/BUILD/R-rc/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-rc/src/unix' gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c Rembedded.c -o Rembedded.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dynload.c -o dynload.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c system.c -o system.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sys-unix.c -o sys-unix.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sys-std.c -o sys-std.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -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-rc/src/unix' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/unix' gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -DR_HOME='"/builddir/build/BUILD/R-rc"' \ -o Rscript ./Rscript.c make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/unix' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/unix' make[2]: Entering directory '/builddir/build/BUILD/R-rc/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-rc/src/main' gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c CommandLineArgs.c -o CommandLineArgs.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c Rdynload.c -o Rdynload.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c Renviron.c -o Renviron.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c RNG.c -o RNG.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c agrep.c -o agrep.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c altclasses.c -o altclasses.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c altrep.c -o altrep.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c apply.c -o apply.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c arithmetic.c -o arithmetic.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c array.c -o array.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c attrib.c -o attrib.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c bind.c -o bind.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c builtin.c -o builtin.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c character.c -o character.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c clippath.c -o clippath.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coerce.c -o coerce.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c colors.c -o colors.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c complex.c -o complex.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c connections.c -o connections.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c context.c -o context.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c cum.c -o cum.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dcf.c -o dcf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c datetime.c -o datetime.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c debug.c -o debug.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c deparse.c -o deparse.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c devices.c -o devices.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dotcode.c -o dotcode.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dounzip.c -o dounzip.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dstruct.c -o dstruct.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c duplicate.c -o duplicate.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c edit.c -o edit.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c engine.c -o engine.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c envir.c -o envir.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c errors.c -o errors.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c eval.c -o eval.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c flexiblas.c -o flexiblas.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c format.c -o format.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c gevents.c -o gevents.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c gram.c -o gram.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c gram-ex.c -o gram-ex.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c graphics.c -o graphics.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c grep.c -o grep.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c identical.c -o identical.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c inlined.c -o inlined.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c inspect.c -o inspect.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c internet.c -o internet.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c iosupport.c -o iosupport.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c lapack.c -o lapack.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c list.c -o list.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c localecharset.c -o localecharset.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c logic.c -o logic.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c machine.c -o machine.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c main.c -o main.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c mapply.c -o mapply.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c mask.c -o mask.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c match.c -o match.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c memory.c -o memory.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c names.c -o names.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c objects.c -o objects.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c options.c -o options.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c paste.c -o paste.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c patterns.c -o patterns.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c platform.c -o platform.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c plot.c -o plot.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c plot3d.c -o plot3d.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c plotmath.c -o plotmath.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c print.c -o print.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c printarray.c -o printarray.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c printvector.c -o printvector.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c printutils.c -o printutils.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qsort.c -o qsort.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c radixsort.c -o radixsort.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c random.c -o random.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c raw.c -o raw.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c registration.c -o registration.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c relop.c -o relop.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rlocale.c -o rlocale.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c saveload.c -o saveload.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c scan.c -o scan.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c seq.c -o seq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c serialize.c -o serialize.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sort.c -o sort.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c source.c -o source.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c split.c -o split.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sprintf.c -o sprintf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c startup.c -o startup.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c subassign.c -o subassign.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c subscript.c -o subscript.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c subset.c -o subset.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c summary.c -o summary.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sysutils.c -o sysutils.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c times.c -o times.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c unique.c -o unique.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c util.c -o util.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c version.c -o version.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c g_alab_her.c -o g_alab_her.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c g_cntrlify.c -o g_cntrlify.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c g_fontdb.c -o g_fontdb.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -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 -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c xxxpr.f -o xxxpr.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: xxxpr.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gcc -shared -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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 -llzma -lbz2 -lz -ltirpc -lrt -ldl -lm -licuuc -licui18n make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/main' mkdir -p -- /builddir/build/BUILD/R-rc/bin/exec mkdir -p -- /builddir/build/BUILD/R-rc/lib make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/main' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/main' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/main' gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c Rmain.c -o Rmain.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -Wl,--export-dynamic -fopenmp -L"../../lib" -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o R.bin Rmain.o -lR make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/main' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/main' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/main' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/main' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/modules' make[3]: Entering directory '/builddir/build/BUILD/R-rc/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-rc/src/modules/internet' gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fvisibility=hidden -c Rhttpd.c -o Rhttpd.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fvisibility=hidden -c Rsock.c -o Rsock.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fvisibility=hidden -c internet.c -o internet.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fvisibility=hidden -c libcurl.c -o libcurl.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fvisibility=hidden -c sock.c -o sock.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fvisibility=hidden -c sockconn.c -o sockconn.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L"../../../lib" -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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-rc/src/modules/internet' mkdir -p -- /builddir/build/BUILD/R-rc/modules make[5]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules/internet' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules/internet' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules/internet' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/modules/lapack' making Lapack.d from Lapack.c make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/modules/lapack' gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c Lapack.c -o Lapack.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../../main/flexiblas.c -o flexiblas.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L"../../../lib" -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o lapack.so Lapack.o flexiblas.o -lR -lflexiblas -lflexiblas -lgfortran -lm -lquadmath make[5]: Entering directory '/builddir/build/BUILD/R-rc/src/modules/lapack' make[5]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules/lapack' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules/lapack' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules/lapack' make[3]: Entering directory '/builddir/build/BUILD/R-rc/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-rc/src/modules/X11' gcc -I/usr/include/libpng16 -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c devX11.c -o devX11.o gcc -I/usr/include/libpng16 -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rotated.c -o rotated.o gcc -I/usr/include/libpng16 -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rbitmap.c -o rbitmap.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L"../../../lib" -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o R_X11.so devX11.o rotated.o rbitmap.o -ltiff -ljpeg -lpng16 -lz -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lpng16 -lz -lcairo -lX11 -lXext -lX11 -lXt -lXmu -lR -lm gcc -I/usr/include/libpng16 -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dataentry.c -o dataentry.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L"../../../lib" -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o R_de.so dataentry.o -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lpng16 -lz -lcairo -lX11 -lXext -lX11 -lXt -lXmu -lR -lm make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules/X11' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/modules/X11' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules/X11' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules/X11' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/library' mkdir -p -- ../../library make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/profile' building system startup profile mkdir -p -- ../../../library/base/R make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/profile' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/translations' building package 'translations' mkdir -p -- ../../../library/translations make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/translations' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/translations' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/translations' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/base' building package 'base' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/base' mkdir -p -- ../../../library/base/demo make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/base' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/base' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/tools' building package 'tools' mkdir -p -- ../../../library/tools make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/tools' mkdir -p -- ../../../library/tools/R make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/tools' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/tools' make[5]: Entering directory '/builddir/build/BUILD/R-rc/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 gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c text.c -o text.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c Rmd5.c -o Rmd5.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c md5.c -o md5.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c signals.c -o signals.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c install.c -o install.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c getfmts.c -o getfmts.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c http.c -o http.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c gramLatex.c -o gramLatex.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c gramRd.c -o gramRd.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pdscan.c -o pdscan.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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 -L../../../../lib -lR make[6]: Entering directory '/builddir/build/BUILD/R-rc/src/library/tools/src' mkdir -p -- ../../../../library/tools/libs make[6]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/tools/src' make[5]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/tools/src' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/tools' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/tools' installing 'sysdata.rda' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/tools' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/tools' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/compiler' building package 'compiler' mkdir -p -- ../../../library/compiler make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/compiler' mkdir -p -- ../../../library/compiler/R make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/compiler' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/compiler' byte-compiling package 'compiler' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/compiler' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/compiler' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/base' byte-compiling package 'base' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/base' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/tools' byte-compiling package 'tools' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/tools' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/utils' building package 'utils' mkdir -p -- ../../../library/utils mkdir -p -- ../../../library/utils/doc make[4]: Entering directory '/builddir/build/BUILD/R-rc/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-rc/src/library/utils' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/utils' make[5]: Entering directory '/builddir/build/BUILD/R-rc/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 -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c io.c -o io.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c size.c -o size.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sock.c -o sock.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c stubs.c -o stubs.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c utils.c -o utils.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c hashtab.c -o hashtab.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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-rc/src/library/utils/src' mkdir -p -- ../../../../library/utils/libs make[6]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/utils/src' make[5]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/utils/src' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/utils' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/utils' installing 'sysdata.rda' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/utils' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/utils' byte-compiling package 'utils' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/utils' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/utils' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/grDevices' building package 'grDevices' mkdir -p -- ../../../library/grDevices make[4]: Entering directory '/builddir/build/BUILD/R-rc/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-rc/src/library/grDevices' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/grDevices' make[5]: Entering directory '/builddir/build/BUILD/R-rc/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 -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c axis_scales.c -o axis_scales.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c chull.c -o chull.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c devices.c -o devices.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c stubs.c -o stubs.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c colors.c -o colors.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c clippath.c -o clippath.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c patterns.c -o patterns.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c mask.c -o mask.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c group.c -o group.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c devCairo.c -o devCairo.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c devPicTeX.c -o devPicTeX.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c devPS.c -o devPS.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c devQuartz.c -o devQuartz.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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-rc/src/library/grDevices/src' mkdir -p -- ../../../../library/grDevices/libs make[7]: Entering directory '/builddir/build/BUILD/R-rc/src/library/grDevices/src/cairo' making cairoBM.d from cairoBM.c make[8]: Entering directory '/builddir/build/BUILD/R-rc/src/library/grDevices/src/cairo' make[9]: Entering directory '/builddir/build/BUILD/R-rc/src/library/grDevices/src/cairo' gcc -I. -I../../../../../src/include -I../../../../../src/include -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c cairoBM.c -o cairoBM.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L"../../../../../lib" -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o cairo.so cairoBM.o ../../../../../src/modules/X11/rbitmap.o -ltiff -ljpeg -lpng16 -lz -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lpng16 -lz -lcairo -L"../../../../../lib" -lR -lm make[9]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grDevices/src/cairo' make[8]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grDevices/src/cairo' make[7]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grDevices/src/cairo' make[6]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grDevices/src' make[5]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grDevices/src' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grDevices' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/grDevices' byte-compiling package 'grDevices' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grDevices' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grDevices' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/graphics' building package 'graphics' mkdir -p -- ../../../library/graphics make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/graphics' mkdir -p -- ../../../library/graphics/R make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/graphics' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/graphics' make[5]: Entering directory '/builddir/build/BUILD/R-rc/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 -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c base.c -o base.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c graphics.c -o graphics.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c par.c -o par.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c plot.c -o plot.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c plot3d.c -o plot3d.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c stem.c -o stem.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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-rc/src/library/graphics/src' mkdir -p -- ../../../../library/graphics/libs make[6]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/graphics/src' make[5]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/graphics/src' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/graphics' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/graphics' byte-compiling package 'graphics' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/graphics' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/graphics' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/stats' building package 'stats' mkdir -p -- ../../../library/stats make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/stats' mkdir -p -- ../../../library/stats/R make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/stats' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/stats' make[5]: Entering directory '/builddir/build/BUILD/R-rc/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 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 gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c kmeans.c -o kmeans.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ansari.c -o ansari.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c bandwidths.c -o bandwidths.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c chisqsim.c -o chisqsim.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c d2x2xk.c -o d2x2xk.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c fexact.c -o fexact.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c kendall.c -o kendall.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ks.c -o ks.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c line.c -o line.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c smooth.c -o smooth.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c prho.c -o prho.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c swilk.c -o swilk.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ksmooth.c -o ksmooth.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c loessc.c -o loessc.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c monoSpl.c -o monoSpl.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c isoreg.c -o isoreg.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c Srunmed.c -o Srunmed.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dblcen.c -o dblcen.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c distance.c -o distance.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c hclust-utils.c -o hclust-utils.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c nls.c -o nls.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rWishart.c -o rWishart.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c HoltWinters.c -o HoltWinters.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c PPsum.c -o PPsum.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c arima.c -o arima.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c burg.c -o burg.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c filter.c -o filter.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c mAR.c -o mAR.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pacf.c -o pacf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c starma.c -o starma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c port.c -o port.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c family.c -o family.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sbart.c -o sbart.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c approx.c -o approx.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c loglin.c -o loglin.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c lowess.c -o lowess.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c massdist.c -o massdist.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c splines.c -o splines.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c lm.c -o lm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c complete_cases.c -o complete_cases.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c cov.c -o cov.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c deriv.c -o deriv.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c fft.c -o fft.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c fourier.c -o fourier.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c model.c -o model.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c optim.c -o optim.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c optimize.c -o optimize.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c integrate.c -o integrate.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c random.c -o random.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c distn.c -o distn.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c zeroin.c -o zeroin.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rcont.c -o rcont.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c influence.c -o influence.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c bsplvd.f -o bsplvd.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: bsplvd.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c bvalue.f -o bvalue.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: bvalue.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c bvalus.f -o bvalus.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: bvalus.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c loessf.f -o loessf.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: loessf.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c ppr.f -o ppr.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: ppr.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c qsbart.f -o qsbart.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: qsbart.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c sgram.f -o sgram.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: sgram.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c sinerp.f -o sinerp.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: sinerp.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c sslvrg.f -o sslvrg.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: sslvrg.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c stxwx.f -o stxwx.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: stxwx.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c hclust.f -o hclust.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: hclust.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c kmns.f -o kmns.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: kmns.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c eureka.f -o eureka.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: eureka.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c stl.f -o stl.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: stl.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -msse2 -mfpmath=sse -flto -c portsrc.f -o portsrc.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: portsrc.f: Warning: -D_GLIBCXX_ASSERTIONS not defined portsrc.f: In function 'i7do_': portsrc.f:6663:72: warning: 'ncomp' may be used uninitialized in this function [-Wmaybe-uninitialized] 6663 | NCOMP = NCOMP + 1 | ^ portsrc.f:6648:72: warning: 'jcol' may be used uninitialized in this function [-Wmaybe-uninitialized] 6648 | LIST(JCOL) = NUMORD | ^ portsrc.f: In function 'dl7mst_': portsrc.f:5521:51: warning: 'alphak' may be used uninitialized in this function [-Wmaybe-uninitialized] 5521 | IF (ALPHAK .LE. ZERO .OR. ALPHAK .LT. LK .OR. ALPHAK .GE. UK) | ^ portsrc.f:5658:18: warning: 'psifac' may be used uninitialized in this function [-Wmaybe-uninitialized] 5658 | IF (ALPHAK .GE. TWOPSI*PSIFAC) GO TO 310 | ^ portsrc.f: In function 'dg7qts_': portsrc.f:10329:55: warning: 'alphak' may be used uninitialized in this function [-Wmaybe-uninitialized] 10329 | IF (-V(DST0) .GE. ALPHAK .OR. ALPHAK .LT. LK .OR. ALPHAK .GE. UK) | ^ portsrc.f:10412:72: warning: 'gtsta' may be used uninitialized in this function [-Wmaybe-uninitialized] 10412 | V(PREDUC) = HALF * (DABS(ALPHAK)*DST*DST + GTSTA) | ^ portsrc.f:10324:72: warning: 'phi' may be used uninitialized in this function [-Wmaybe-uninitialized] 10324 | LK = DMAX1(LK, PHI*W(PHIPIN)) | ^ portsrc.f:10466:10: warning: 'kamin' may be used uninitialized in this function [-Wmaybe-uninitialized] 10466 | IF (KA .GE. KAMIN) GO TO 340 | ^ portsrc.f: In function 'dd7dgb_': portsrc.f:12243:72: warning: 'nred' may be used uninitialized in this function [-Wmaybe-uninitialized] 12243 | V(NREDUC) = NRED | ^ portsrc.f:12246:72: warning: 'dnwtst' may be used uninitialized in this function [-Wmaybe-uninitialized] 12246 | V(DST0) = DNWTST | ^ portsrc.f: In function 'dg7qsb_': portsrc.f:2515:72: warning: 'nred' may be used uninitialized in this function [-Wmaybe-uninitialized] 2515 | V(NREDUC) = NRED | ^ portsrc.f:2514:72: warning: 'ds0' may be used uninitialized in this function [-Wmaybe-uninitialized] 2514 | 60 V(DST0) = DS0 | ^ portsrc.f: In function 'dl7msb_': portsrc.f:8174:72: warning: 'nred' may be used uninitialized in this function [-Wmaybe-uninitialized] 8174 | V(NREDUC) = NRED | ^ portsrc.f:8173:72: warning: 'ds0' may be used uninitialized in this function [-Wmaybe-uninitialized] 8173 | 90 V(DST0) = DS0 | ^ portsrc.f: In function 'df7hes_': portsrc.f:8652:72: warning: 'hes' may be used uninitialized in this function [-Wmaybe-uninitialized] 8652 | 210 IV(FDH) = HES | ^ portsrc.f: In function 'dparck_': portsrc.f:3587:10: warning: 'miv2' may be used uninitialized in this function [-Wmaybe-uninitialized] 3587 | IF (LIV .LT. MIV2) GO TO 300 | ^ portsrc.f: In function 'drn2gb_': portsrc.f:12079:72: warning: 'g1' may be used uninitialized in this function [-Wmaybe-uninitialized] 12079 | 270 CALL DITSUM(D, V(G1), IV, LIV, LV, P, V, X) | ^ portsrc.f: In function 'drn2g_': portsrc.f:458:72: warning: 'g1' may be used uninitialized in this function [-Wmaybe-uninitialized] 458 | 300 CALL DITSUM(D, V(G1), IV, LIV, LV, P, V, X) | ^ portsrc.f:366:72: warning: 'rmat1' may be used uninitialized in this function [-Wmaybe-uninitialized] 366 | CALL DL7VML(P, V(G1), V(RMAT1), V(QTR1)) | ^ portsrc.f:366:72: warning: 'qtr1' may be used uninitialized in this function [-Wmaybe-uninitialized] gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c lminfl.f -o lminfl.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: lminfl.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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 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 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 stl.o portsrc.o lminfl.o -fopenmp -lflexiblas -lflexiblas -lgfortran -lm -lquadmath -L../../../../lib -lR make[6]: Entering directory '/builddir/build/BUILD/R-rc/src/library/stats/src' mkdir -p -- ../../../../library/stats/libs make[6]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/stats/src' make[5]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/stats/src' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/stats' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/stats' byte-compiling package 'stats' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/stats' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/stats' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/datasets' building package 'datasets' mkdir -p -- ../../../library/datasets make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/datasets' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/datasets' mkdir -p -- ../../../library/datasets/data make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/datasets' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/methods' building package 'methods' mkdir -p -- ../../../library/methods make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/methods' mkdir -p -- ../../../library/methods/R make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/methods' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/methods' make[5]: Entering directory '/builddir/build/BUILD/R-rc/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 -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c do_substitute_direct.c -o do_substitute_direct.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c methods_list_dispatch.c -o methods_list_dispatch.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c slot.c -o slot.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c class_support.c -o class_support.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c tests.c -o tests.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c utils.c -o utils.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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-rc/src/library/methods/src' mkdir -p -- ../../../../library/methods/libs make[6]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/methods/src' make[5]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/methods/src' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/methods' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/methods' byte-compiling package 'methods' initializing class and method definitions ... done make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/methods' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/methods' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/grid' building package 'grid' mkdir -p -- ../../../library/grid mkdir -p -- ../../../library/grid/doc make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/grid' mkdir -p -- ../../../library/grid/R make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grid' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/grid' make[5]: Entering directory '/builddir/build/BUILD/R-rc/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 -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c clippath.c -o clippath.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c gpar.c -o gpar.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c grid.c -o grid.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c just.c -o just.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c layout.c -o layout.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c mask.c -o mask.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c matrix.c -o matrix.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c path.c -o path.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c register.c -o register.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c state.c -o state.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c typeset.c -o typeset.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c unit.c -o unit.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c util.c -o util.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c viewport.c -o viewport.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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-rc/src/library/grid/src' mkdir -p -- ../../../../library/grid/libs make[6]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grid/src' make[5]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grid/src' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grid' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/grid' byte-compiling package 'grid' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grid' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/grid' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/splines' building package 'splines' mkdir -p -- ../../../library/splines make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/splines' mkdir -p -- ../../../library/splines/R make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/splines' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/splines' make[5]: Entering directory '/builddir/build/BUILD/R-rc/src/library/splines/src' making splines.d from splines.c gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c splines.c -o splines.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o splines.so splines.o -L../../../../lib -lR make[6]: Entering directory '/builddir/build/BUILD/R-rc/src/library/splines/src' mkdir -p -- ../../../../library/splines/libs make[6]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/splines/src' make[5]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/splines/src' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/splines' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/splines' byte-compiling package 'splines' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/splines' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/splines' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/stats4' building package 'stats4' mkdir -p -- ../../../library/stats4 make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/stats4' mkdir -p -- ../../../library/stats4/R make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/stats4' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/stats4' byte-compiling package 'stats4' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/stats4' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/stats4' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/tcltk' building package 'tcltk' mkdir -p -- ../../../library/tcltk/R make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/tcltk' mkdir -p -- ../../../library/tcltk/exec make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/tcltk' make[4]: Entering directory '/builddir/build/BUILD/R-rc/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 -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c tcltk.c -o tcltk.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c tcltk_unix.c -o tcltk_unix.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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-rc/src/library/tcltk/src' mkdir -p -- ../../../../library/tcltk/libs make[5]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/tcltk/src' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/tcltk/src' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/tcltk' byte-compiling package 'tcltk' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/tcltk' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/tcltk' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/parallel' building package 'parallel' mkdir -p -- ../../../library/parallel mkdir -p -- ../../../library/parallel/doc make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/parallel' mkdir -p -- ../../../library/parallel/R make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/parallel' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/parallel' make[5]: Entering directory '/builddir/build/BUILD/R-rc/src/library/parallel/src' making init.d from init.c making rngstream.d from rngstream.c making fork.d from fork.c gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rngstream.c -o rngstream.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c fork.c -o fork.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o parallel.so init.o rngstream.o fork.o -L../../../../lib -lR make[6]: Entering directory '/builddir/build/BUILD/R-rc/src/library/parallel/src' mkdir -p -- ../../../../library/parallel/libs make[6]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/parallel/src' make[5]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/parallel/src' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/parallel' make[4]: Entering directory '/builddir/build/BUILD/R-rc/src/library/parallel' byte-compiling package 'parallel' make[4]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/parallel' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/parallel' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library/base' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/base' installing parsed NAMESPACE files make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/library' make[1]: Leaving directory '/builddir/build/BUILD/R-rc/src' make[1]: Entering directory '/builddir/build/BUILD/R-rc/tests' make[1]: Nothing to be done for 'R'. make[1]: Leaving directory '/builddir/build/BUILD/R-rc/tests' you should 'make docs' now ... make[1]: Entering directory '/builddir/build/BUILD/R-rc/doc' creating doc/NEWS creating doc/NEWS.pdf make[2]: Entering directory '/builddir/build/BUILD/R-rc/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-rc/doc/html' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/doc/html' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/doc/manual' make[1]: Leaving directory '/builddir/build/BUILD/R-rc/doc' make[1]: Entering directory '/builddir/build/BUILD/R-rc/src/library' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/library' installing parsed Rd make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library' base stats utils methods graphics grDevices datasets grid tools tcltk splines stats4 compiler parallel make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/library' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/library' building/updating package metadata ... make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/library' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/library' writing package indices make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/library' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/library' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/library' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/library' building all R object docs converting help for package 'base' Arithmetic html AsIs html Bessel html CallExternal html Colon html Comparison html Constants html Control html Cstack_info html DateTimeClasses html Dates html Defunct html Deprecated html Encoding html EnvVar html Extract html Extract.data.frame html Extract.factor html Extremes html Foreign-internal html Foreign html Hyperbolic html ISOdatetime html Internal html InternalMethods html La_library html La_version html Last.value html Log html Logic html LongVectors html MathFun html Memory-limits html Memory html NA html NULL html NumericConstants html Ops.Date html Paren html Platform html Primitive html Quotes html Random-user html Random html RdUtils html Recall html Reserved html Rhome html Round html S3method html Special html StackOverflows html Startup html Syntax html Sys.getenv html Sys.getpid html Sys.glob html Sys.info html Sys.localeconv html Sys.readlink html Sys.setFileTime html Sys.setenv html Sys.sleep html Sys.time html Sys.which html Trig html UTF8filepaths html UseMethod html Vectorize html Version html abbreviate html agrep html all html all.equal html allnames html any html aperm html append html apply html args html array html array2DF html as.Date html as.POSIXlt html as.data.frame html as.environment html as.function html asplit html assign html assignOps html attach html attr html attributes html autoload html backsolve html balancePOSIXlt html base-defunct html REDIRECT:topic Previous alias or file overwritten by alias: ../../library/base/help/Version.html REDIRECT:topic Previous alias or file overwritten by alias: ../../library/base/help/Platform.html base-deprecated html base-internal html base-package html basename 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 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 colSums html colnames html commandArgs html comment html complex html conditions html conflicts html connections html contributors html copyright html crossprod html cumsum html curlGetHeaders html cut.POSIXt html cut html data.class html data.frame html data.matrix html dataframeHelpers html date html dcf html debug html delayedAssign html deparse html deparseOpts 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 environment html eval html exists html expand.grid html expression 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 formals html format html format.info html format.pval html formatDL html formatc 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 iconv html icuSetCollate html identical html identity html ifelse html integer html interaction html interactive html invisible html is.finite html is.function html is.language html is.object html is.recursive html is.single html is.unsorted html isR html isS4 html isSymmetric html jitter html kappa html kronecker html l10n_info html labels html lapply html lazyload html length html lengths html levels html libPaths html libcurlVersion html library html library.dynam html license html list html list.files html list2DF html list2env html load html locales html logical html lower.tri html ls html make.names html make.unique html mapply html marginSums html mat.or.vec html match html match.arg html match.call html match.fun html matmult html matrix html maxCol html mean html memCompress html memlimits html memory.profile html merge html message html missing html mode html mtfrm 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 numeric html numeric_version html octmode html on.exit html options html order html outer html parse html paste html path.expand html pcre_config html pipeOp html plot html pmatch html polyroot html pos.to.env html pretty html print html print.dataframe html print.default html prmatrix html proc.time html prod html proportions html pushBack html qr html qraux html quit html range html rank html rapply html raw html rawConnection html rawConversion html readBin html readChar html readLines html readRDS html readRenviron html readline html reg.finalizer html regex html regmatches html rep html replace html rev html rle html rm html round.POSIXt html row html row.names html rowsum html sQuote 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 setTimeLimit html sets html shQuote html showConnections html sign html sink html slice.index html slotOp html socketSelect html solve html sort html source html split html sprintf html srcfile html standardGeneric html startsWith 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 sys.parent html sys.source html system html system.file html system.time html system2 html t html table html tabulate 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 trimws html try html typeof html unique html units html unlink html unlist html unname html userhooks html utf8Conversion html validUTF8 html vector html warning html warnings html weekday.POSIXt html which html which.min html with html withVisible html write html writeLines html xtfrm html zMachine html zScript html zapsmall html zpackages html zutils html Signals html converting help for package 'tools' CRANtools html HTMLheader html HTMLlinks html QC html Rcmd html Rd2HTML html Rd2txt_options html RdTextFilter html Rdiff html Rdindex html Rdutils html SweaveTeXFilter html add_datalist html assertCondition html bibstyle html buildVignette html buildVignettes html charsets html checkFF html checkMD5sums html checkPoFiles html checkRd html checkRdaFiles html checkTnF html checkVignettes html check_packages_in_dir html codoc html compactPDF html delimMatch html dependsOnPkgs html encoded html fileutils html find_gs_cmd html getVignetteInfo html loadRdMacros html makeLazyLoading html make_translations_pkg html makevars html matchConcordance html md5sum html package_dependencies html package_native_routine_registration_skeleton html parseLatex html parse_Rd html print.via.format html pskill html psnice html read.00Index html showNonASCII html startDynamicHelp html testInstalledPackage html texi2dvi html toHTML html toRd html toTitleCase html tools-defunct html tools-deprecated html tools-package html undoc html updatePACKAGES html update_pkg_po html userdir html vignetteEngine html vignetteInfo html writePACKAGES html xgettext html converting help for package 'utils' BATCH html COMPILE html DLL.version html INSTALL html LINK html PkgUtils html Question html REMOVE html RHOME html RShowDoc html RSiteSearch html Rconsole html Rprof html Rprofmem html Rscript html Rtangle html RweaveLatex html SHLIB html Sweave html SweaveSyntConv html SweaveUtils html URLencode html View html adist html alarm html apropos html aregexec html arrangeWindows html askYesNo html aspell-utils html aspell html available.packages html bibentry 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 citEntry html citation html cite html clipboard html close.socket html combn html compareVersion html contrib.url html count.fields html create.post html data html dataentry html debugcall html debugger html demo html download.file html download.packages html edit html edit.data.frame 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 hasName html hashtab html head html help html help.request html help.search html help.start html hsearch-utils html install.packages html installed.packages html isS3method html isS3stdGen 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 process.events html prompt html promptData html promptPackage html rcompgen 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 removeSource html roman html rtags html savehistory html select.list html sessionInfo html setRepositories html setWindowTitle html shortPathName html sourceutils html stack html str html strcapture html summaryRprof html tar html toLatex html txtProgressBar html type.convert html untar html unzip html update.packages html upgrade html url.show html utils-defunct html utils-deprecated html utils-internal html utils-package html vignette html warnErrList html winDialog html winMenus html winProgressBar html winextras html write.table html zip html converting help for package 'grDevices' Devices html Hershey html Japanese html Type1Font html 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 html dev.capabilities html dev.capture html dev.flush html dev.interactive html dev.size html dev2 html dev2bitmap html devAskNewPage html embedFonts html extendrange html getGraphicsEvent html glyphInfo html grDevices-internal html grDevices-package html grSoftVersion html gray html gray.colors html hcl html hsv html make.rgb html msgWindow html n2mfrow html nclass html palette html palettes html pdf html pdf.options 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 windows html windows.options html windowsFonts html x11 html x11Fonts html xfig html xy.coords html xyTable html xyz.coords html png html savePlot html converting help for package 'graphics' abline html arrows html assocplot html axTicks html axis.POSIXct html axis html barplot html box html boxplot html boxplot.matrix 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' AIC html ARMAacf html ARMAtoMA html Beta html Binomial html Cauchy html Chisquare html Distributions html Exponential html Fdist html GammaDist html Geometric html HoltWinters html Hypergeometric html IQR html KalmanLike html Logistic html Lognormal html Multinom html NLSstAsymptotic html NLSstClosestX html NLSstLfAsymptote html NLSstRtAsymptote html NegBinomial html Normal html Pair html Poisson html SSD html SSasymp html SSasympOff html SSasympOrig html SSbiexp html SSfol html SSfpl html SSgompertz html SSlogis html SSmicmen html SSweibull html SignRank html Smirnov html StructTS html TDist html Tukey html TukeyHSD html Uniform html Weibull html Wilcoxon html acf html acf2AR html add1 html addmargins html aggregate html alias html anova html anova.glm html anova.lm html anova.mlm html ansari.test html aov html approxfun html ar html ar.ols html arima html arima.sim html arima0 html as.hclust html asOneSidedFormula html ave html bandwidth html bartlett.test html binom.test html biplot html biplot.princomp html birthday html box.test html cancor html case.names html checkMFClasses html chisq.test 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 dummy.coef html ecdf html eff.aovlist html effects html embed html expand.model.frame html extractAIC html factanal html factor.scope html family html fft html filter html fisher.test html fitted.values html fivenum html fligner.test html formula html formula.nls html friedman.test html ftable html ftable.formula html getInitial html glm html glm.control html glm.summaries html hclust html heatmap html identify.hclust html influence.measures html integrate html interaction.plot html is.empty html isoreg html kernapply html kernel html kmeans html kruskal.test html ks.test html ksmooth html lag html lag.plot html line html listof html lm html lm.influence html lm.summaries html lmfit html loadings html loess html loess.control html logLik html loglin 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 na.action html na.contiguous html na.fail html nafns html naprint html nextn html nlm html nlminb html nls html nls.control html nobs html numericDeriv html offset html oneway.test html optim html optimize html order.dendrogram html p.adjust html pairwise.prop.test html pairwise.t.test html pairwise.table html pairwise.wilcox.test html plot.HoltWinters html plot.acf html plot.density html plot.isoreg html plot.lm html plot.ppr html plot.profile.nls html plot.spec html plot.stepfun html plot.ts html poisson.test html poly html power html power.anova.test html power.prop.test html power.t.test html pp.test html ppoints html ppr html prcomp html predict.HoltWinters html predict html predict.arima html predict.glm html predict.lm html predict.loess html predict.nls html predict.smooth.spline html preplot html princomp html print.power.htest html print.ts html printCoefmat html profile html profile.nls html proj html prop.test html prop.trend.test html qqnorm html quade.test html quantile html r2dtable html rWishart html read.ftable html rect.hclust html relevel html reorder.dendrogram html reorder.factor html replications html reshape html residuals html runmed html scatter.smooth html screeplot html sd html se.contrast html selfStart html setNames html shapiro.test html sigma html simulate html smooth html smooth.spline html smoothEnds html sortedXyData html spec.ar html spec.pgram html spec.taper html spectrum html splinefun html start html stat.anova html stats-defunct html stats-deprecated html stats-package html step html stepfun html stl html stlmethods 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 termplot html terms html terms.formula html terms.object html time html toeplitz html ts-methods html ts html ts.plot html ts.union html tsSmooth html tsdiag html tsp html uniroot html update html update.formula html var.test html varimax html vcov html weighted.mean html weighted.residuals html weights html wilcox.test html window html xtabs html zC html converting help for package 'datasets' AirPassengers html BJsales html BOD html ChickWeight html DNase html EuStockMarkets html Formaldehyde html HairEyeColor html Harman23.cor html Harman74.cor html Indometh html InsectSprays html JohnsonJohnson html LakeHuron html LifeCycleSavings html Loblolly html Nile html Orange html OrchardSprays html PlantGrowth html Puromycin html Theoph html Titanic html ToothGrowth html UCBAdmissions html UKDriverDeaths html UKLungDeaths html UKgas html USAccDeaths html USArrests html USJudgeRatings html USPersonalExpenditure html VADeaths html WWWusage html WorldPhones html ability.cov html airmiles html airquality html anscombe html attenu html attitude html austres html beavers html cars html chickwts html co2 html crimtab html datasets-package html discoveries html esoph html euro html eurodist html faithful html freeny html infert html iris html islands html lh html longley html lynx html morley html mtcars html nhtemp html nottem html npk html occupationalStatus html precip html presidents html pressure 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 treering html trees html uspop html volcano html warpbreaks html women html zCO2 html converting help for package 'methods' BasicClasses html Classes html Classes_Details html Documentation html EmptyMethodsList-class html EnvironmentClass html GenericFunctions html Introduction html LanguageClasses html LinearMethodsList-class html MethodDefinition-class html MethodSupport html MethodWithNext-class html Methods html MethodsList-class html MethodsList html Methods_Details html Methods_for_Nongenerics html Methods_for_S3 html NextMethod html ObjectsWithPackage-class html RClassUtils html RMethodUtils html S3Part html S4groupGeneric html SClassExtension-class html StructureClasses html TraceClasses html as html callGeneric html canCoerce html cbind2 html className html classRepresentation-class html classesToAM html dotsMethods html evalSource html findClass html findMethods html fixPrevious html genericFunction-class html getClass html getMethod html getPackageName html hasArg html implicitGeneric html inheritedSlotNames html initialize-methods html is html isSealedMethod html languageEl html localRefClass html method.skeleton html methodUtilities html methods-defunct html methods-deprecated html methods-package html new html nonStructure-class html promptClass html promptMethods html refClass html removeMethod html representation 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 substituteDirect html testInheritedMethods html validObject html zBasicFunsList html converting help for package 'grid' Grid html 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 gPath html getNames html gpar html grid-defunct html grid-internal html grid-package html grid.DLapply 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.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.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 html unit.c html unit.length html unit.pmin html unit.rep html unitType html valid.just html validDetails html viewport html viewportTransform html viewports 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.bSpline html predict.bs 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 TkCommands html TkWidgetcmds html TkWidgets html tclServiceMode html tcltk-defunct html tcltk-package html tkProgressBar html tkStartGUI html tk_choose.dir html tk_choose.files html tk_messageBox html tk_select.list html tkpager html converting help for package 'compiler' compile html converting help for package 'parallel' RngStream html clusterApply html detectCores html makeCluster html parallel-package html splitIndices html children html mcaffinity html mcfork html mclapply html mcparallel html pvec html make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/library' make[1]: Leaving directory '/builddir/build/BUILD/R-rc/src/library' make[1]: Entering directory '/builddir/build/BUILD/R-rc/src/library/Recommended' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/library/Recommended' begin installing recommended package MASS * installing *source* package 'MASS' ... ** using non-staged installation ** libs using C compiler: 'gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[3]: Entering directory '/tmp/RtmpbNcF1o/R.INSTALL45aa30c76e74/MASS/src' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c MASS.c -o MASS.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c lqs.c -o lqs.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o MASS.so MASS.o lqs.o -L/builddir/build/BUILD/R-rc/lib -lR make[3]: Leaving directory '/tmp/RtmpbNcF1o/R.INSTALL45aa30c76e74/MASS/src' installing to /builddir/build/BUILD/R-rc/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 plot.profile 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' ... ** package 'lattice' successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: 'gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[3]: Entering directory '/tmp/Rtmptc74Mw/R.INSTALL45e535b4b4c9/lattice/src' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c threeDplot.c -o threeDplot.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o lattice.so init.o threeDplot.o -L/builddir/build/BUILD/R-rc/lib -lR make[3]: Leaving directory '/tmp/Rtmptc74Mw/R.INSTALL45e535b4b4c9/lattice/src' installing to /builddir/build/BUILD/R-rc/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 ** 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' ... ** package 'Matrix' successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: 'gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[3]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c CHMfactor.c -o CHMfactor.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c Csparse.c -o Csparse.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c Mutils.c -o Mutils.o Mutils.c: In function 'Mmatrix': Mutils.c:1337:28: warning: missing braces around initializer [-Wmissing-braces] 1337 | Rcomplex zna = { NA_REAL, 0.0 }; | ^ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c chm_common.c -o chm_common.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c cs.c -o cs.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c cs_utils.c -o cs_utils.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dense.c -o dense.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dgCMatrix.c -o dgCMatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dgeMatrix.c -o dgeMatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dpoMatrix.c -o dpoMatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dppMatrix.c -o dppMatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dsCMatrix.c -o dsCMatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dsyMatrix.c -o dsyMatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dspMatrix.c -o dspMatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dtCMatrix.c -o dtCMatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dtrMatrix.c -o dtrMatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dtpMatrix.c -o dtpMatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c factorizations.c -o factorizations.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sparseQR.c -o sparseQR.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sparseVector.c -o sparseVector.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c abIndex.c -o abIndex.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c packedMatrix.c -o packedMatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c unpackedMatrix.c -o unpackedMatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sparse.c -o sparse.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c subscript.c -o subscript.o subscript.c: In function 'RsparseMatrix_subscript_2ary': subscript.c:1689:33: warning: variable 'doSort' set but not used [-Wunused-but-set-variable] 1689 | int i_, j_, j_prev = n, doSort = 0; | ^~~~~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I./SuiteSparse_config -DUSE_FC_LEN_T -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c validity.c -o validity.o make[4]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/CHOLMOD' ( cd Lib ; make clean ) make[5]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/CHOLMOD/Lib' make[5]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/CHOLMOD/Lib' make[4]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/CHOLMOD' make[4]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/COLAMD' ( cd Source ; make clean ) make[5]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/COLAMD/Source' make[5]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/COLAMD/Source' make[4]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/COLAMD' make[4]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/AMD' ( cd Source ; make clean ) make[5]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/AMD/Source' make[5]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/AMD/Source' make[4]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/AMD' make[4]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/SuiteSparse_config' make[4]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/SuiteSparse_config' make[4]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/CHOLMOD' ( cd Lib ; make -f "/builddir/build/BUILD/R-rc/etc/Makeconf" -f Makefile ) make[5]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/CHOLMOD/Lib' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_aat.c -o cholmod_aat.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_add.c -o cholmod_add.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_band.c -o cholmod_band.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_change_factor.c -o cholmod_change_factor.o In file included from ../Core/cholmod_change_factor.c:113: ../Core/t_cholmod_change_factor.c: In function 'r_change_simplicial_numeric': ../Core/t_cholmod_change_factor.c:37:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 37 | double *Lx, *Lz ; | ^~ In file included from ../Core/cholmod_change_factor.c:115: ../Core/t_cholmod_change_factor.c: In function 'c_change_simplicial_numeric': ../Core/t_cholmod_change_factor.c:37:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 37 | double *Lx, *Lz ; | ^~ ../Core/cholmod_change_factor.c: In function 'simplicial_symbolic_to_super_symbolic': ../Core/cholmod_change_factor.c:262:17: warning: variable 'xsize' set but not used [-Wunused-but-set-variable] 262 | Int nsuper, xsize, ssize ; | ^~~~~ ../Core/cholmod_change_factor.c: In function 'change_simplicial_numeric': ../Core/cholmod_change_factor.c:677:15: warning: variable 'Li' set but not used [-Wunused-but-set-variable] 677 | Int *Lp, *Li, *Lnz ; | ^~ ../Core/cholmod_change_factor.c:677:10: warning: variable 'Lp' set but not used [-Wunused-but-set-variable] 677 | Int *Lp, *Li, *Lnz ; | ^~ ../Core/cholmod_change_factor.c:676:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 676 | double *Lx, *Lz ; | ^~ ../Core/cholmod_change_factor.c:676:13: warning: variable 'Lx' set but not used [-Wunused-but-set-variable] 676 | double *Lx, *Lz ; | ^~ ../Core/cholmod_change_factor.c: In function 'll_super_to_simplicial_numeric': ../Core/cholmod_change_factor.c:824:9: warning: variable 'n' set but not used [-Wunused-but-set-variable] 824 | Int n, lnz, s, nsuper, psi, psend, nsrow, nscol, k1, k2, erows ; | ^ ../Core/cholmod_change_factor.c:823:21: warning: variable 'Lpx' set but not used [-Wunused-but-set-variable] 823 | Int *Ls, *Lpi, *Lpx, *Super, *Li ; | ^~~ ../Core/cholmod_change_factor.c:823:10: warning: variable 'Ls' set but not used [-Wunused-but-set-variable] 823 | Int *Ls, *Lpi, *Lpx, *Super, *Li ; | ^~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_common.c -o cholmod_common.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_complex.c -o cholmod_complex.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_copy.c -o cholmod_copy.o ../Core/cholmod_copy.c: In function 'cholmod_copy': ../Core/cholmod_copy.c:275:25: warning: variable 'lo' set but not used [-Wunused-but-set-variable] 275 | Int nrow, ncol, up, lo, values, diag, astype ; | ^~ ../Core/cholmod_copy.c:275:21: warning: variable 'up' set but not used [-Wunused-but-set-variable] 275 | Int nrow, ncol, up, lo, values, diag, astype ; | ^~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_dense.c -o cholmod_dense.o In file included from ../Core/cholmod_dense.c:45: ../Core/t_cholmod_dense.c: In function 'p_cholmod_sparse_to_dense': ../Core/t_cholmod_dense.c:27:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ ../Core/t_cholmod_dense.c:27:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ ../Core/t_cholmod_dense.c:27:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ In file included from ../Core/cholmod_dense.c:47: ../Core/t_cholmod_dense.c: In function 'r_cholmod_sparse_to_dense': ../Core/t_cholmod_dense.c:27:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ ../Core/t_cholmod_dense.c:27:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ ../Core/t_cholmod_dense.c: In function 'r_cholmod_dense_to_sparse': ../Core/t_cholmod_dense.c:133:28: warning: variable 'Cz' set but not used [-Wunused-but-set-variable] 133 | double *Xx, *Cx, *Xz, *Cz ; | ^~ ../Core/t_cholmod_dense.c:133:23: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 133 | double *Xx, *Cx, *Xz, *Cz ; | ^~ ../Core/t_cholmod_dense.c: In function 'r_cholmod_copy_dense2': ../Core/t_cholmod_dense.c:226:28: warning: variable 'Yz' set but not used [-Wunused-but-set-variable] 226 | double *Xx, *Xz, *Yx, *Yz ; | ^~ ../Core/t_cholmod_dense.c:226:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 226 | double *Xx, *Xz, *Yx, *Yz ; | ^~ In file included from ../Core/cholmod_dense.c:49: ../Core/t_cholmod_dense.c: In function 'c_cholmod_sparse_to_dense': ../Core/t_cholmod_dense.c:27:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ ../Core/t_cholmod_dense.c:27:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ ../Core/t_cholmod_dense.c: In function 'c_cholmod_dense_to_sparse': ../Core/t_cholmod_dense.c:133:28: warning: variable 'Cz' set but not used [-Wunused-but-set-variable] 133 | double *Xx, *Cx, *Xz, *Cz ; | ^~ ../Core/t_cholmod_dense.c:133:23: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 133 | double *Xx, *Cx, *Xz, *Cz ; | ^~ ../Core/t_cholmod_dense.c: In function 'c_cholmod_copy_dense2': ../Core/t_cholmod_dense.c:226:28: warning: variable 'Yz' set but not used [-Wunused-but-set-variable] 226 | double *Xx, *Xz, *Yx, *Yz ; | ^~ ../Core/t_cholmod_dense.c:226:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 226 | double *Xx, *Xz, *Yx, *Yz ; | ^~ ../Core/cholmod_dense.c: In function 'cholmod_eye': ../Core/cholmod_dense.c:300:15: warning: variable 'nz' set but not used [-Wunused-but-set-variable] 300 | Int i, n, nz ; | ^~ ../Core/cholmod_dense.c:299:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 299 | double *Xx, *Xz ; | ^~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_error.c -o cholmod_error.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_factor.c -o cholmod_factor.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_memory.c -o cholmod_memory.o ../Core/cholmod_memory.c: In function 'cholmod_malloc': ../Core/cholmod_memory.c:121:12: warning: unused variable 's' [-Wunused-variable] 121 | size_t s ; | ^ ../Core/cholmod_memory.c: In function 'cholmod_realloc': ../Core/cholmod_memory.c:311:12: warning: unused variable 's' [-Wunused-variable] 311 | size_t s ; | ^ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_sparse.c -o cholmod_sparse.o ../Core/cholmod_sparse.c: In function 'cholmod_copy_sparse': ../Core/cholmod_sparse.c:485:35: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 485 | Int p, pend, j, ncol, packed, nzmax, nz, xtype ; | ^~~~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_transpose.c -o cholmod_transpose.o In file included from ../Core/cholmod_transpose.c:121: ../Core/t_cholmod_transpose.c: In function 'p_cholmod_transpose_unsym': ../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~ ../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~~ ../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:42:23: warning: variable 'Fx' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:42:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c: In function 'p_cholmod_transpose_sym': ../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 140 | Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:139:23: warning: variable 'Fx' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:139:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ In file included from ../Core/cholmod_transpose.c:123: ../Core/t_cholmod_transpose.c: In function 'r_cholmod_transpose_unsym': ../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~ ../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~~ ../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c: In function 'r_cholmod_transpose_sym': ../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 140 | Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ In file included from ../Core/cholmod_transpose.c:125: ../Core/t_cholmod_transpose.c: In function 'c_cholmod_transpose_unsym': ../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~ ../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~~ ../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c: In function 'c_cholmod_transpose_sym': ../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 140 | Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ In file included from ../Core/cholmod_transpose.c:128: ../Core/t_cholmod_transpose.c: In function 'ct_cholmod_transpose_unsym': ../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~ ../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~~ ../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c: In function 'ct_cholmod_transpose_sym': ../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 140 | Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ In file included from ../Core/cholmod_transpose.c:130: ../Core/t_cholmod_transpose.c: In function 'z_cholmod_transpose_unsym': ../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~ ../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~~ ../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c: In function 'z_cholmod_transpose_sym': ../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 140 | Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ; | ^~ In file included from ../Core/cholmod_transpose.c:133: ../Core/t_cholmod_transpose.c: In function 'zt_cholmod_transpose_unsym': ../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~ ../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~~ ../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c: In function 'zt_cholmod_transpose_sym': ../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 140 | Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ; | ^~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_triplet.c -o cholmod_triplet.o In file included from ../Core/cholmod_triplet.c:105: ../Core/t_cholmod_triplet.c: In function 'p_cholmod_triplet_to_sparse': ../Core/t_cholmod_triplet.c:28:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ ../Core/t_cholmod_triplet.c:28:23: warning: variable 'Tx' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ ../Core/t_cholmod_triplet.c:28:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ ../Core/t_cholmod_triplet.c:28:13: warning: variable 'Rx' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ In file included from ../Core/cholmod_triplet.c:107: ../Core/t_cholmod_triplet.c: In function 'r_cholmod_triplet_to_sparse': ../Core/t_cholmod_triplet.c:28:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ ../Core/t_cholmod_triplet.c:28:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ In file included from ../Core/cholmod_triplet.c:109: ../Core/t_cholmod_triplet.c: In function 'c_cholmod_triplet_to_sparse': ../Core/t_cholmod_triplet.c:28:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ ../Core/t_cholmod_triplet.c:28:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ ../Core/cholmod_triplet.c: In function 'cholmod_triplet_to_sparse': ../Core/cholmod_triplet.c:342:44: warning: variable 'ok' set but not used [-Wunused-but-set-variable] 342 | Int i, j, p, k, stype, nrow, ncol, nz, ok ; | ^~ ../Core/cholmod_triplet.c:341:20: warning: variable 'Ri' set but not used [-Wunused-but-set-variable] 341 | Int *Wj, *Rp, *Ri, *Rnz, *Ti, *Tj ; | ^~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Core/cholmod_version.c -o cholmod_version.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Check/cholmod_check.c -o cholmod_check.o ../Check/cholmod_check.c: In function 'check_common': ../Check/cholmod_check.c:204:61: warning: variable 'init_print' set but not used [-Wunused-but-set-variable] 204 | Int i, nrow, nmethods, ordering, xworksize, amd_backup, init_print ; | ^~~~~~~~~~ ../Check/cholmod_check.c: In function 'check_dense': ../Check/cholmod_check.c:950:37: warning: variable 'nz' set but not used [-Wunused-but-set-variable] 950 | Int i, j, d, nrow, ncol, nzmax, nz, init_print, count, xtype ; | ^~ ../Check/cholmod_check.c: In function 'check_factor': ../Check/cholmod_check.c:1497:9: warning: variable 'ps2' set but not used [-Wunused-but-set-variable] 1497 | ps2, psxend, ssize, xsize, maxcsize, maxesize, nsrow2, jj, ii, xtype ; | ^~~ ../Check/cholmod_check.c:1495:16: warning: variable 'precise' set but not used [-Wunused-but-set-variable] 1495 | count, precise, init_print, ilast, lnz, head, tail, jprev, plast, | ^~~~~~~ ../Check/cholmod_check.c:1494:38: warning: variable 'ordering' set but not used [-Wunused-but-set-variable] 1494 | Int n, nzmax, j, p, pend, i, nz, ordering, space, is_monotonic, minor, | ^~~~~~~~ ../Check/cholmod_check.c: In function 'check_factor.constprop.0': ../Check/cholmod_check.c:1496:62: warning: 'psx' may be used uninitialized in this function [-Wmaybe-uninitialized] 1496 | jnext, examine_super, nsuper, s, k1, k2, psi, psend, psx, nsrow, nscol, | ^~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Check/cholmod_read.c -o cholmod_read.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Check/cholmod_write.c -o cholmod_write.o ../Check/cholmod_write.c: In function 'cholmod_write_sparse': ../Check/cholmod_write.c:366:33: warning: variable 'symmetry' set but not used [-Wunused-but-set-variable] 366 | Int nrow, ncol, is_complex, symmetry, i, j, q, iz, p, nz, is_binary, stype, | ^~~~~~~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Cholesky/cholmod_amd.c -o cholmod_amd.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Cholesky/cholmod_analyze.c -o cholmod_analyze.o ../Cholesky/cholmod_analyze.c: In function 'cholmod_analyze_p2': ../Cholesky/cholmod_analyze.c:419:69: warning: variable 'ncol' set but not used [-Wunused-but-set-variable] 419 | Int k, n, ordering, method, nmethods, status, default_strategy, ncol, uncol, | ^~~~ ../Cholesky/cholmod_analyze.c:416:45: warning: variable 'CParent' set but not used [-Wunused-but-set-variable] 416 | Int *First, *Level, *Work4n, *Cmember, *CParent, *ColCount, *Lperm, *Parent, | ^~~~~~~ ../Cholesky/cholmod_analyze.c:416:35: warning: variable 'Cmember' set but not used [-Wunused-but-set-variable] 416 | Int *First, *Level, *Work4n, *Cmember, *CParent, *ColCount, *Lperm, *Parent, | ^~~~~~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Cholesky/cholmod_colamd.c -o cholmod_colamd.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Cholesky/cholmod_etree.c -o cholmod_etree.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Cholesky/cholmod_factorize.c -o cholmod_factorize.o ../Cholesky/cholmod_factorize.c: In function 'cholmod_factorize_p': ../Cholesky/cholmod_factorize.c:111:37: warning: variable 'n' set but not used [-Wunused-but-set-variable] 111 | Int nrow, ncol, stype, convert, n, nsuper, grow2, status ; | ^ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Cholesky/cholmod_postorder.c -o cholmod_postorder.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Cholesky/cholmod_rcond.c -o cholmod_rcond.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Cholesky/cholmod_resymbol.c -o cholmod_resymbol.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Cholesky/cholmod_rowcolcounts.c -o cholmod_rowcolcounts.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Cholesky/cholmod_rowfac.c -o cholmod_rowfac.o In file included from ../Cholesky/cholmod_rowfac.c:161: ../Cholesky/t_cholmod_rowfac.c: In function 'r_cholmod_rowfac': ../Cholesky/t_cholmod_rowfac.c:50:53: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 50 | use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ; | ^~~~~ ../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ In file included from ../Cholesky/cholmod_rowfac.c:163: ../Cholesky/t_cholmod_rowfac.c: In function 'c_cholmod_rowfac': ../Cholesky/t_cholmod_rowfac.c:50:53: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 50 | use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ; | ^~~~~ ../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ In file included from ../Cholesky/cholmod_rowfac.c:165: ../Cholesky/t_cholmod_rowfac.c: In function 'z_cholmod_rowfac': ../Cholesky/t_cholmod_rowfac.c:50:53: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 50 | use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ; | ^~~~~ In file included from ../Cholesky/cholmod_rowfac.c:169: ../Cholesky/t_cholmod_rowfac.c: In function 'r_cholmod_rowfac_mask': ../Cholesky/t_cholmod_rowfac.c:50:53: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 50 | use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ; | ^~~~~ ../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ In file included from ../Cholesky/cholmod_rowfac.c:171: ../Cholesky/t_cholmod_rowfac.c: In function 'c_cholmod_rowfac_mask': ../Cholesky/t_cholmod_rowfac.c:50:53: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 50 | use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ; | ^~~~~ ../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ In file included from ../Cholesky/cholmod_rowfac.c:173: ../Cholesky/t_cholmod_rowfac.c: In function 'z_cholmod_rowfac_mask': ../Cholesky/t_cholmod_rowfac.c:50:53: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 50 | use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ; | ^~~~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Cholesky/cholmod_solve.c -o cholmod_solve.o In file included from ../Cholesky/cholmod_solve.c:63: ../Cholesky/t_cholmod_solve.c: In function 'r_ldl_dsolve': ../Cholesky/t_cholmod_solve.c:61:23: warning: variable 'Yz' set but not used [-Wunused-but-set-variable] 61 | double *Lx, *Yx, *Yz ; | ^~ In file included from ../Cholesky/cholmod_solve.c:66: ../Cholesky/t_cholmod_solve.c: In function 'c_ldl_dsolve': ../Cholesky/t_cholmod_solve.c:61:23: warning: variable 'Yz' set but not used [-Wunused-but-set-variable] 61 | double *Lx, *Yx, *Yz ; | ^~ ../Cholesky/cholmod_solve.c: In function 'iperm': ../Cholesky/cholmod_solve.c:334:13: warning: variable 'nk' set but not used [-Wunused-but-set-variable] 334 | Int k2, nk, p, k, j, nrow, ncol, d, dj, j2 ; | ^~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Cholesky/cholmod_spsolve.c -o cholmod_spsolve.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../MatrixOps/cholmod_drop.c -o cholmod_drop.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../MatrixOps/cholmod_horzcat.c -o cholmod_horzcat.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../MatrixOps/cholmod_norm.c -o cholmod_norm.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../MatrixOps/cholmod_scale.c -o cholmod_scale.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../MatrixOps/cholmod_sdmult.c -o cholmod_sdmult.o In file included from ../MatrixOps/cholmod_sdmult.c:44: ../MatrixOps/t_cholmod_sdmult.c: In function 'r_cholmod_sdmult': ../MatrixOps/t_cholmod_sdmult.c:52:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 52 | Int packed, nrow, ncol, j, k, p, pend, kcol, i ; | ^~~~ ../MatrixOps/t_cholmod_sdmult.c:49:47: warning: variable 'Wz' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ ../MatrixOps/t_cholmod_sdmult.c:49:38: warning: variable 'Yz' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ ../MatrixOps/t_cholmod_sdmult.c:49:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ ../MatrixOps/t_cholmod_sdmult.c:49:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ In file included from ../MatrixOps/cholmod_sdmult.c:46: ../MatrixOps/t_cholmod_sdmult.c: In function 'c_cholmod_sdmult': ../MatrixOps/t_cholmod_sdmult.c:52:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 52 | Int packed, nrow, ncol, j, k, p, pend, kcol, i ; | ^~~~ ../MatrixOps/t_cholmod_sdmult.c:49:47: warning: variable 'Wz' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ ../MatrixOps/t_cholmod_sdmult.c:49:38: warning: variable 'Yz' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ ../MatrixOps/t_cholmod_sdmult.c:49:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ ../MatrixOps/t_cholmod_sdmult.c:49:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ In file included from ../MatrixOps/cholmod_sdmult.c:48: ../MatrixOps/t_cholmod_sdmult.c: In function 'z_cholmod_sdmult': ../MatrixOps/t_cholmod_sdmult.c:52:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 52 | Int packed, nrow, ncol, j, k, p, pend, kcol, i ; | ^~~~ In file included from ../MatrixOps/cholmod_sdmult.c:44: ../MatrixOps/t_cholmod_sdmult.c: In function 'r_cholmod_sdmult': ../MatrixOps/t_cholmod_sdmult.c:49:43: warning: 'w' may be used uninitialized in this function [-Wmaybe-uninitialized] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^ In file included from ../Include/cholmod_internal.h:260, from ../MatrixOps/cholmod_sdmult.c:35: ../MatrixOps/cholmod_sdmult.c: In function 'cholmod_sdmult': ../Include/cholmod_complexity.h:167:11: warning: 'Wz' may be used uninitialized in this function [-Wmaybe-uninitialized] 167 | z [p] = az [q] | ^ In file included from ../MatrixOps/cholmod_sdmult.c:48: ../MatrixOps/t_cholmod_sdmult.c:49:47: note: 'Wz' was declared here 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ In file included from ../Include/cholmod_internal.h:260, from ../MatrixOps/cholmod_sdmult.c:35: ../Include/cholmod_complexity.h:166:11: warning: 'w' may be used uninitialized in this function [-Wmaybe-uninitialized] 166 | x [p] = ax [q] ; \ | ^ In file included from ../MatrixOps/cholmod_sdmult.c:48: ../MatrixOps/t_cholmod_sdmult.c:49:43: note: 'w' was declared here 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^ In file included from ../MatrixOps/cholmod_sdmult.c:46: ../MatrixOps/t_cholmod_sdmult.c:49:43: warning: 'w' may be used uninitialized in this function [-Wmaybe-uninitialized] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../MatrixOps/cholmod_ssmult.c -o cholmod_ssmult.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../MatrixOps/cholmod_submatrix.c -o cholmod_submatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../MatrixOps/cholmod_vertcat.c -o cholmod_vertcat.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../MatrixOps/cholmod_symmetry.c -o cholmod_symmetry.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Modify/cholmod_rowadd.c -o cholmod_rowadd.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Modify/cholmod_rowdel.c -o cholmod_rowdel.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Modify/cholmod_updown.c -o cholmod_updown.o ../Modify/cholmod_updown.c: In function 'cholmod_updown_mask2': ../Modify/cholmod_updown.c:433:40: warning: variable 'ps1' set but not used [-Wunused-but-set-variable] 433 | *Set_ps1 [32], *Set_ps2 [32], *ps1, *ps2 ; | ^~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Supernodal/cholmod_super_numeric.c -o cholmod_super_numeric.o In file included from ../Supernodal/cholmod_super_numeric.c:82: ../Supernodal/t_cholmod_super_numeric.c: In function 'r_cholmod_super_numeric': ../Supernodal/t_cholmod_super_numeric.c:249: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 249 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:311: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 311 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:326: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 326 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:355: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 355 | #pragma omp parallel for private ( p, pend, pfend, pf, i, j, imap, q ) \ | ../Supernodal/t_cholmod_super_numeric.c:743: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 743 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:756: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 756 | #pragma omp parallel for private ( j, i, px, q ) \ | ../Supernodal/t_cholmod_super_numeric.c:116:9: warning: unused variable 'tail' [-Wunused-variable] 116 | tail, nscol_new = 0; | ^~~~ ../Supernodal/t_cholmod_super_numeric.c:113:9: warning: unused variable 'pj' [-Wunused-variable] 113 | pj, d, kd1, kd2, info, ndcol, ndrow, pdi, pdx, pdend, pdi1, pdi2, pdx1, | ^~ ../Supernodal/t_cholmod_super_numeric.c:111:10: warning: variable 'Previous' set but not used [-Wunused-but-set-variable] 111 | *Previous; | ^~~~~~~~ ../Supernodal/t_cholmod_super_numeric.c:108:33: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 108 | double *Lx, *Ax, *Fx, *Az, *Fz, *C ; | ^~ ../Supernodal/t_cholmod_super_numeric.c:108:28: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 108 | double *Lx, *Ax, *Fx, *Az, *Fz, *C ; | ^~ In file included from ../Supernodal/cholmod_super_numeric.c:84: ../Supernodal/t_cholmod_super_numeric.c: In function 'c_cholmod_super_numeric': ../Supernodal/t_cholmod_super_numeric.c:249: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 249 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:311: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 311 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:326: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 326 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:355: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 355 | #pragma omp parallel for private ( p, pend, pfend, pf, i, j, imap, q ) \ | ../Supernodal/t_cholmod_super_numeric.c:743: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 743 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:756: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 756 | #pragma omp parallel for private ( j, i, px, q ) \ | ../Supernodal/t_cholmod_super_numeric.c:116:9: warning: unused variable 'tail' [-Wunused-variable] 116 | tail, nscol_new = 0; | ^~~~ ../Supernodal/t_cholmod_super_numeric.c:113:9: warning: unused variable 'pj' [-Wunused-variable] 113 | pj, d, kd1, kd2, info, ndcol, ndrow, pdi, pdx, pdend, pdi1, pdi2, pdx1, | ^~ ../Supernodal/t_cholmod_super_numeric.c:111:10: warning: variable 'Previous' set but not used [-Wunused-but-set-variable] 111 | *Previous; | ^~~~~~~~ ../Supernodal/t_cholmod_super_numeric.c:108:33: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 108 | double *Lx, *Ax, *Fx, *Az, *Fz, *C ; | ^~ ../Supernodal/t_cholmod_super_numeric.c:108:28: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 108 | double *Lx, *Ax, *Fx, *Az, *Fz, *C ; | ^~ In file included from ../Supernodal/cholmod_super_numeric.c:86: ../Supernodal/t_cholmod_super_numeric.c: In function 'z_cholmod_super_numeric': ../Supernodal/t_cholmod_super_numeric.c:249: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 249 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:311: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 311 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:326: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 326 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:355: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 355 | #pragma omp parallel for private ( p, pend, pfend, pf, i, j, imap, q ) \ | ../Supernodal/t_cholmod_super_numeric.c:743: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 743 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:756: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 756 | #pragma omp parallel for private ( j, i, px, q ) \ | ../Supernodal/t_cholmod_super_numeric.c:116:9: warning: unused variable 'tail' [-Wunused-variable] 116 | tail, nscol_new = 0; | ^~~~ ../Supernodal/t_cholmod_super_numeric.c:113:9: warning: unused variable 'pj' [-Wunused-variable] 113 | pj, d, kd1, kd2, info, ndcol, ndrow, pdi, pdx, pdend, pdi1, pdi2, pdx1, | ^~ ../Supernodal/t_cholmod_super_numeric.c:111:10: warning: variable 'Previous' set but not used [-Wunused-but-set-variable] 111 | *Previous; | ^~~~~~~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Supernodal/cholmod_super_solve.c -o cholmod_super_solve.o In file included from ../Supernodal/cholmod_super_solve.c:26: ../Supernodal/t_cholmod_super_solve.c: In function 'r_cholmod_super_lsolve': ../Supernodal/t_cholmod_super_solve.c:30:17: warning: variable 'n' set but not used [-Wunused-but-set-variable] 30 | nsrow2, n, ps2, j, i, d, nrhs ; | ^ ../Supernodal/t_cholmod_super_solve.c: In function 'r_cholmod_super_ltsolve': ../Supernodal/t_cholmod_super_solve.c:238:17: warning: variable 'n' set but not used [-Wunused-but-set-variable] 238 | nsrow2, n, ps2, j, i, d, nrhs ; | ^ In file included from ../Supernodal/cholmod_super_solve.c:28: ../Supernodal/t_cholmod_super_solve.c: In function 'c_cholmod_super_lsolve': ../Supernodal/t_cholmod_super_solve.c:30:17: warning: variable 'n' set but not used [-Wunused-but-set-variable] 30 | nsrow2, n, ps2, j, i, d, nrhs ; | ^ ../Supernodal/t_cholmod_super_solve.c: In function 'c_cholmod_super_ltsolve': ../Supernodal/t_cholmod_super_solve.c:238:17: warning: variable 'n' set but not used [-Wunused-but-set-variable] 238 | nsrow2, n, ps2, j, i, d, nrhs ; | ^ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ../Supernodal/cholmod_super_symbolic.c -o cholmod_super_symbolic.o ../Supernodal/cholmod_super_symbolic.c: In function 'cholmod_super_symbolic2': ../Supernodal/cholmod_super_symbolic.c:562:21: warning: variable 'totsize' set but not used [-Wunused-but-set-variable] 562 | Int totsize ; | ^~~~~~~ ../Supernodal/cholmod_super_symbolic.c:185:12: warning: unused variable 'max_fraction' [-Wunused-variable] 185 | double max_fraction; | ^~~~~~~~~~~~ ../Supernodal/cholmod_super_symbolic.c:184:17: warning: unused variable 'env_max_fraction' [-Wunused-variable] 184 | const char* env_max_fraction; | ^~~~~~~~~~~~~~~~ ../Supernodal/cholmod_super_symbolic.c:183:12: warning: unused variable 'max_bytes' [-Wunused-variable] 183 | size_t max_bytes; | ^~~~~~~~~ ../Supernodal/cholmod_super_symbolic.c:182:17: warning: unused variable 'env_max_bytes' [-Wunused-variable] 182 | const char* env_max_bytes; | ^~~~~~~~~~~~~ ../Supernodal/cholmod_super_symbolic.c:181:17: warning: unused variable 'env_use_gpu' [-Wunused-variable] 181 | const char* env_use_gpu; | ^~~~~~~~~~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_aat.c -o cholmod_l_aat.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_add.c -o cholmod_l_add.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_band.c -o cholmod_l_band.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_change_factor.c -o cholmod_l_change_factor.o In file included from ../Core/cholmod_change_factor.c:113: ../Core/t_cholmod_change_factor.c: In function 'r_change_simplicial_numeric': ../Core/t_cholmod_change_factor.c:37:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 37 | double *Lx, *Lz ; | ^~ In file included from ../Core/cholmod_change_factor.c:115: ../Core/t_cholmod_change_factor.c: In function 'c_change_simplicial_numeric': ../Core/t_cholmod_change_factor.c:37:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 37 | double *Lx, *Lz ; | ^~ ../Core/cholmod_change_factor.c: In function 'simplicial_symbolic_to_super_symbolic': ../Core/cholmod_change_factor.c:262:17: warning: variable 'xsize' set but not used [-Wunused-but-set-variable] 262 | Int nsuper, xsize, ssize ; | ^~~~~ ../Core/cholmod_change_factor.c: In function 'change_simplicial_numeric': ../Core/cholmod_change_factor.c:677:15: warning: variable 'Li' set but not used [-Wunused-but-set-variable] 677 | Int *Lp, *Li, *Lnz ; | ^~ ../Core/cholmod_change_factor.c:677:10: warning: variable 'Lp' set but not used [-Wunused-but-set-variable] 677 | Int *Lp, *Li, *Lnz ; | ^~ ../Core/cholmod_change_factor.c:676:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 676 | double *Lx, *Lz ; | ^~ ../Core/cholmod_change_factor.c:676:13: warning: variable 'Lx' set but not used [-Wunused-but-set-variable] 676 | double *Lx, *Lz ; | ^~ ../Core/cholmod_change_factor.c: In function 'll_super_to_simplicial_numeric': ../Core/cholmod_change_factor.c:824:9: warning: variable 'n' set but not used [-Wunused-but-set-variable] 824 | Int n, lnz, s, nsuper, psi, psend, nsrow, nscol, k1, k2, erows ; | ^ ../Core/cholmod_change_factor.c:823:21: warning: variable 'Lpx' set but not used [-Wunused-but-set-variable] 823 | Int *Ls, *Lpi, *Lpx, *Super, *Li ; | ^~~ ../Core/cholmod_change_factor.c:823:10: warning: variable 'Ls' set but not used [-Wunused-but-set-variable] 823 | Int *Ls, *Lpi, *Lpx, *Super, *Li ; | ^~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_common.c -o cholmod_l_common.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_complex.c -o cholmod_l_complex.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_copy.c -o cholmod_l_copy.o ../Core/cholmod_copy.c: In function 'cholmod_l_copy': ../Core/cholmod_copy.c:275:25: warning: variable 'lo' set but not used [-Wunused-but-set-variable] 275 | Int nrow, ncol, up, lo, values, diag, astype ; | ^~ ../Core/cholmod_copy.c:275:21: warning: variable 'up' set but not used [-Wunused-but-set-variable] 275 | Int nrow, ncol, up, lo, values, diag, astype ; | ^~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_dense.c -o cholmod_l_dense.o In file included from ../Core/cholmod_dense.c:45: ../Core/t_cholmod_dense.c: In function 'p_cholmod_sparse_to_dense': ../Core/t_cholmod_dense.c:27:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ ../Core/t_cholmod_dense.c:27:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ ../Core/t_cholmod_dense.c:27:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ In file included from ../Core/cholmod_dense.c:47: ../Core/t_cholmod_dense.c: In function 'r_cholmod_sparse_to_dense': ../Core/t_cholmod_dense.c:27:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ ../Core/t_cholmod_dense.c:27:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ ../Core/t_cholmod_dense.c: In function 'r_cholmod_dense_to_sparse': ../Core/t_cholmod_dense.c:133:28: warning: variable 'Cz' set but not used [-Wunused-but-set-variable] 133 | double *Xx, *Cx, *Xz, *Cz ; | ^~ ../Core/t_cholmod_dense.c:133:23: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 133 | double *Xx, *Cx, *Xz, *Cz ; | ^~ ../Core/t_cholmod_dense.c: In function 'r_cholmod_copy_dense2': ../Core/t_cholmod_dense.c:226:28: warning: variable 'Yz' set but not used [-Wunused-but-set-variable] 226 | double *Xx, *Xz, *Yx, *Yz ; | ^~ ../Core/t_cholmod_dense.c:226:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 226 | double *Xx, *Xz, *Yx, *Yz ; | ^~ In file included from ../Core/cholmod_dense.c:49: ../Core/t_cholmod_dense.c: In function 'c_cholmod_sparse_to_dense': ../Core/t_cholmod_dense.c:27:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ ../Core/t_cholmod_dense.c:27:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 27 | double *Ax, *Xx, *Az, *Xz ; | ^~ ../Core/t_cholmod_dense.c: In function 'c_cholmod_dense_to_sparse': ../Core/t_cholmod_dense.c:133:28: warning: variable 'Cz' set but not used [-Wunused-but-set-variable] 133 | double *Xx, *Cx, *Xz, *Cz ; | ^~ ../Core/t_cholmod_dense.c:133:23: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 133 | double *Xx, *Cx, *Xz, *Cz ; | ^~ ../Core/t_cholmod_dense.c: In function 'c_cholmod_copy_dense2': ../Core/t_cholmod_dense.c:226:28: warning: variable 'Yz' set but not used [-Wunused-but-set-variable] 226 | double *Xx, *Xz, *Yx, *Yz ; | ^~ ../Core/t_cholmod_dense.c:226:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 226 | double *Xx, *Xz, *Yx, *Yz ; | ^~ ../Core/cholmod_dense.c: In function 'cholmod_l_eye': ../Core/cholmod_dense.c:300:15: warning: variable 'nz' set but not used [-Wunused-but-set-variable] 300 | Int i, n, nz ; | ^~ ../Core/cholmod_dense.c:299:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 299 | double *Xx, *Xz ; | ^~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_error.c -o cholmod_l_error.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_factor.c -o cholmod_l_factor.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_memory.c -o cholmod_l_memory.o ../Core/cholmod_memory.c: In function 'cholmod_l_malloc': ../Core/cholmod_memory.c:121:12: warning: unused variable 's' [-Wunused-variable] 121 | size_t s ; | ^ ../Core/cholmod_memory.c: In function 'cholmod_l_realloc': ../Core/cholmod_memory.c:311:12: warning: unused variable 's' [-Wunused-variable] 311 | size_t s ; | ^ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_sparse.c -o cholmod_l_sparse.o ../Core/cholmod_sparse.c: In function 'cholmod_l_copy_sparse': ../Core/cholmod_sparse.c:485:35: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 485 | Int p, pend, j, ncol, packed, nzmax, nz, xtype ; | ^~~~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_transpose.c -o cholmod_l_transpose.o In file included from ../Core/cholmod_transpose.c:121: ../Core/t_cholmod_transpose.c: In function 'p_cholmod_transpose_unsym': ../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~ ../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~~ ../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:42:23: warning: variable 'Fx' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:42:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c: In function 'p_cholmod_transpose_sym': ../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 140 | Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:139:23: warning: variable 'Fx' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:139:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ In file included from ../Core/cholmod_transpose.c:123: ../Core/t_cholmod_transpose.c: In function 'r_cholmod_transpose_unsym': ../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~ ../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~~ ../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c: In function 'r_cholmod_transpose_sym': ../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 140 | Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ In file included from ../Core/cholmod_transpose.c:125: ../Core/t_cholmod_transpose.c: In function 'c_cholmod_transpose_unsym': ../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~ ../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~~ ../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c: In function 'c_cholmod_transpose_sym': ../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 140 | Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ In file included from ../Core/cholmod_transpose.c:128: ../Core/t_cholmod_transpose.c: In function 'ct_cholmod_transpose_unsym': ../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~ ../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~~ ../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:42:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:42:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 42 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c: In function 'ct_cholmod_transpose_sym': ../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 140 | Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c:139:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ ../Core/t_cholmod_transpose.c:139:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 139 | double *Ax, *Az, *Fx, *Fz ; | ^~ In file included from ../Core/cholmod_transpose.c:130: ../Core/t_cholmod_transpose.c: In function 'z_cholmod_transpose_unsym': ../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~ ../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~~ ../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c: In function 'z_cholmod_transpose_sym': ../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 140 | Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ; | ^~ In file included from ../Core/cholmod_transpose.c:133: ../Core/t_cholmod_transpose.c: In function 'zt_cholmod_transpose_unsym': ../Core/t_cholmod_transpose.c:44:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~~~~ ../Core/t_cholmod_transpose.c:44:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 44 | Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ; | ^~~~ ../Core/t_cholmod_transpose.c:43:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~~ ../Core/t_cholmod_transpose.c:43:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 43 | Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ; | ^~ ../Core/t_cholmod_transpose.c: In function 'zt_cholmod_transpose_sym': ../Core/t_cholmod_transpose.c:140:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable] 140 | Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ; | ^~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_triplet.c -o cholmod_l_triplet.o In file included from ../Core/cholmod_triplet.c:105: ../Core/t_cholmod_triplet.c: In function 'p_cholmod_triplet_to_sparse': ../Core/t_cholmod_triplet.c:28:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ ../Core/t_cholmod_triplet.c:28:23: warning: variable 'Tx' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ ../Core/t_cholmod_triplet.c:28:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ ../Core/t_cholmod_triplet.c:28:13: warning: variable 'Rx' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ In file included from ../Core/cholmod_triplet.c:107: ../Core/t_cholmod_triplet.c: In function 'r_cholmod_triplet_to_sparse': ../Core/t_cholmod_triplet.c:28:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ ../Core/t_cholmod_triplet.c:28:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ In file included from ../Core/cholmod_triplet.c:109: ../Core/t_cholmod_triplet.c: In function 'c_cholmod_triplet_to_sparse': ../Core/t_cholmod_triplet.c:28:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ ../Core/t_cholmod_triplet.c:28:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable] 28 | double *Rx, *Rz, *Tx, *Tz ; | ^~ ../Core/cholmod_triplet.c: In function 'cholmod_l_triplet_to_sparse': ../Core/cholmod_triplet.c:342:44: warning: variable 'ok' set but not used [-Wunused-but-set-variable] 342 | Int i, j, p, k, stype, nrow, ncol, nz, ok ; | ^~ ../Core/cholmod_triplet.c:341:20: warning: variable 'Ri' set but not used [-Wunused-but-set-variable] 341 | Int *Wj, *Rp, *Ri, *Rnz, *Ti, *Tj ; | ^~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Core/cholmod_version.c -o cholmod_l_version.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Check/cholmod_check.c -o cholmod_l_check.o ../Check/cholmod_check.c: In function 'check_common': ../Check/cholmod_check.c:204:61: warning: variable 'init_print' set but not used [-Wunused-but-set-variable] 204 | Int i, nrow, nmethods, ordering, xworksize, amd_backup, init_print ; | ^~~~~~~~~~ ../Check/cholmod_check.c: In function 'check_dense': ../Check/cholmod_check.c:950:37: warning: variable 'nz' set but not used [-Wunused-but-set-variable] 950 | Int i, j, d, nrow, ncol, nzmax, nz, init_print, count, xtype ; | ^~ ../Check/cholmod_check.c: In function 'check_factor': ../Check/cholmod_check.c:1497:9: warning: variable 'ps2' set but not used [-Wunused-but-set-variable] 1497 | ps2, psxend, ssize, xsize, maxcsize, maxesize, nsrow2, jj, ii, xtype ; | ^~~ ../Check/cholmod_check.c:1495:16: warning: variable 'precise' set but not used [-Wunused-but-set-variable] 1495 | count, precise, init_print, ilast, lnz, head, tail, jprev, plast, | ^~~~~~~ ../Check/cholmod_check.c:1494:38: warning: variable 'ordering' set but not used [-Wunused-but-set-variable] 1494 | Int n, nzmax, j, p, pend, i, nz, ordering, space, is_monotonic, minor, | ^~~~~~~~ ../Check/cholmod_check.c: In function 'check_factor.constprop.0': ../Check/cholmod_check.c:1496:62: warning: 'psx' may be used uninitialized in this function [-Wmaybe-uninitialized] 1496 | jnext, examine_super, nsuper, s, k1, k2, psi, psend, psx, nsrow, nscol, | ^~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Check/cholmod_read.c -o cholmod_l_read.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Check/cholmod_write.c -o cholmod_l_write.o ../Check/cholmod_write.c: In function 'cholmod_l_write_sparse': ../Check/cholmod_write.c:366:33: warning: variable 'symmetry' set but not used [-Wunused-but-set-variable] 366 | Int nrow, ncol, is_complex, symmetry, i, j, q, iz, p, nz, is_binary, stype, | ^~~~~~~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Cholesky/cholmod_amd.c -o cholmod_l_amd.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Cholesky/cholmod_analyze.c -o cholmod_l_analyze.o ../Cholesky/cholmod_analyze.c: In function 'cholmod_l_analyze_p2': ../Cholesky/cholmod_analyze.c:419:69: warning: variable 'ncol' set but not used [-Wunused-but-set-variable] 419 | Int k, n, ordering, method, nmethods, status, default_strategy, ncol, uncol, | ^~~~ ../Cholesky/cholmod_analyze.c:416:45: warning: variable 'CParent' set but not used [-Wunused-but-set-variable] 416 | Int *First, *Level, *Work4n, *Cmember, *CParent, *ColCount, *Lperm, *Parent, | ^~~~~~~ ../Cholesky/cholmod_analyze.c:416:35: warning: variable 'Cmember' set but not used [-Wunused-but-set-variable] 416 | Int *First, *Level, *Work4n, *Cmember, *CParent, *ColCount, *Lperm, *Parent, | ^~~~~~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Cholesky/cholmod_colamd.c -o cholmod_l_colamd.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Cholesky/cholmod_etree.c -o cholmod_l_etree.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Cholesky/cholmod_factorize.c -o cholmod_l_factorize.o ../Cholesky/cholmod_factorize.c: In function 'cholmod_l_factorize_p': ../Cholesky/cholmod_factorize.c:111:37: warning: variable 'n' set but not used [-Wunused-but-set-variable] 111 | Int nrow, ncol, stype, convert, n, nsuper, grow2, status ; | ^ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Cholesky/cholmod_postorder.c -o cholmod_l_postorder.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Cholesky/cholmod_rcond.c -o cholmod_l_rcond.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Cholesky/cholmod_resymbol.c -o cholmod_l_resymbol.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Cholesky/cholmod_rowcolcounts.c -o cholmod_l_rowcolcounts.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Cholesky/cholmod_rowfac.c -o cholmod_l_rowfac.o In file included from ../Cholesky/cholmod_rowfac.c:161: ../Cholesky/t_cholmod_rowfac.c: In function 'r_cholmod_rowfac': ../Cholesky/t_cholmod_rowfac.c:50:53: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 50 | use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ; | ^~~~~ ../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ In file included from ../Cholesky/cholmod_rowfac.c:163: ../Cholesky/t_cholmod_rowfac.c: In function 'c_cholmod_rowfac': ../Cholesky/t_cholmod_rowfac.c:50:53: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 50 | use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ; | ^~~~~ ../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ In file included from ../Cholesky/cholmod_rowfac.c:165: ../Cholesky/t_cholmod_rowfac.c: In function 'z_cholmod_rowfac': ../Cholesky/t_cholmod_rowfac.c:50:53: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 50 | use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ; | ^~~~~ In file included from ../Cholesky/cholmod_rowfac.c:169: ../Cholesky/t_cholmod_rowfac.c: In function 'r_cholmod_rowfac_mask': ../Cholesky/t_cholmod_rowfac.c:50:53: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 50 | use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ; | ^~~~~ ../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ In file included from ../Cholesky/cholmod_rowfac.c:171: ../Cholesky/t_cholmod_rowfac.c: In function 'c_cholmod_rowfac_mask': ../Cholesky/t_cholmod_rowfac.c:50:53: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 50 | use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ; | ^~~~~ ../Cholesky/t_cholmod_rowfac.c:46:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ ../Cholesky/t_cholmod_rowfac.c:46:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 46 | double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ; | ^~ In file included from ../Cholesky/cholmod_rowfac.c:173: ../Cholesky/t_cholmod_rowfac.c: In function 'z_cholmod_rowfac_mask': ../Cholesky/t_cholmod_rowfac.c:50:53: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable] 50 | use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ; | ^~~~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Cholesky/cholmod_solve.c -o cholmod_l_solve.o In file included from ../Cholesky/cholmod_solve.c:63: ../Cholesky/t_cholmod_solve.c: In function 'r_ldl_dsolve': ../Cholesky/t_cholmod_solve.c:61:23: warning: variable 'Yz' set but not used [-Wunused-but-set-variable] 61 | double *Lx, *Yx, *Yz ; | ^~ In file included from ../Cholesky/cholmod_solve.c:66: ../Cholesky/t_cholmod_solve.c: In function 'c_ldl_dsolve': ../Cholesky/t_cholmod_solve.c:61:23: warning: variable 'Yz' set but not used [-Wunused-but-set-variable] 61 | double *Lx, *Yx, *Yz ; | ^~ ../Cholesky/cholmod_solve.c: In function 'iperm': ../Cholesky/cholmod_solve.c:334:13: warning: variable 'nk' set but not used [-Wunused-but-set-variable] 334 | Int k2, nk, p, k, j, nrow, ncol, d, dj, j2 ; | ^~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Cholesky/cholmod_spsolve.c -o cholmod_l_spsolve.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../MatrixOps/cholmod_drop.c -o cholmod_l_drop.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../MatrixOps/cholmod_horzcat.c -o cholmod_l_horzcat.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../MatrixOps/cholmod_norm.c -o cholmod_l_norm.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../MatrixOps/cholmod_scale.c -o cholmod_l_scale.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../MatrixOps/cholmod_sdmult.c -o cholmod_l_sdmult.o In file included from ../MatrixOps/cholmod_sdmult.c:44: ../MatrixOps/t_cholmod_sdmult.c: In function 'r_cholmod_sdmult': ../MatrixOps/t_cholmod_sdmult.c:52:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 52 | Int packed, nrow, ncol, j, k, p, pend, kcol, i ; | ^~~~ ../MatrixOps/t_cholmod_sdmult.c:49:47: warning: variable 'Wz' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ ../MatrixOps/t_cholmod_sdmult.c:49:38: warning: variable 'Yz' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ ../MatrixOps/t_cholmod_sdmult.c:49:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ ../MatrixOps/t_cholmod_sdmult.c:49:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ In file included from ../MatrixOps/cholmod_sdmult.c:46: ../MatrixOps/t_cholmod_sdmult.c: In function 'c_cholmod_sdmult': ../MatrixOps/t_cholmod_sdmult.c:52:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 52 | Int packed, nrow, ncol, j, k, p, pend, kcol, i ; | ^~~~ ../MatrixOps/t_cholmod_sdmult.c:49:47: warning: variable 'Wz' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ ../MatrixOps/t_cholmod_sdmult.c:49:38: warning: variable 'Yz' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ ../MatrixOps/t_cholmod_sdmult.c:49:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ ../MatrixOps/t_cholmod_sdmult.c:49:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ In file included from ../MatrixOps/cholmod_sdmult.c:48: ../MatrixOps/t_cholmod_sdmult.c: In function 'z_cholmod_sdmult': ../MatrixOps/t_cholmod_sdmult.c:52:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable] 52 | Int packed, nrow, ncol, j, k, p, pend, kcol, i ; | ^~~~ In file included from ../MatrixOps/cholmod_sdmult.c:44: ../MatrixOps/t_cholmod_sdmult.c: In function 'r_cholmod_sdmult': ../MatrixOps/t_cholmod_sdmult.c:49:43: warning: 'w' may be used uninitialized in this function [-Wmaybe-uninitialized] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^ In file included from ../Include/cholmod_internal.h:260, from ../MatrixOps/cholmod_sdmult.c:35: ../MatrixOps/cholmod_sdmult.c: In function 'cholmod_l_sdmult': ../Include/cholmod_complexity.h:167:11: warning: 'Wz' may be used uninitialized in this function [-Wmaybe-uninitialized] 167 | z [p] = az [q] | ^ In file included from ../MatrixOps/cholmod_sdmult.c:48: ../MatrixOps/t_cholmod_sdmult.c:49:47: note: 'Wz' was declared here 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^~ In file included from ../Include/cholmod_internal.h:260, from ../MatrixOps/cholmod_sdmult.c:35: ../Include/cholmod_complexity.h:166:11: warning: 'w' may be used uninitialized in this function [-Wmaybe-uninitialized] 166 | x [p] = ax [q] ; \ | ^ In file included from ../MatrixOps/cholmod_sdmult.c:48: ../MatrixOps/t_cholmod_sdmult.c:49:43: note: 'w' was declared here 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^ In file included from ../MatrixOps/cholmod_sdmult.c:46: ../MatrixOps/t_cholmod_sdmult.c:49:43: warning: 'w' may be used uninitialized in this function [-Wmaybe-uninitialized] 49 | double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ; | ^ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../MatrixOps/cholmod_ssmult.c -o cholmod_l_ssmult.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../MatrixOps/cholmod_submatrix.c -o cholmod_l_submatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../MatrixOps/cholmod_vertcat.c -o cholmod_l_vertcat.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../MatrixOps/cholmod_symmetry.c -o cholmod_l_symmetry.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Modify/cholmod_rowadd.c -o cholmod_l_rowadd.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Modify/cholmod_rowdel.c -o cholmod_l_rowdel.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Modify/cholmod_updown.c -o cholmod_l_updown.o ../Modify/cholmod_updown.c: In function 'cholmod_l_updown_mask2': ../Modify/cholmod_updown.c:433:40: warning: variable 'ps1' set but not used [-Wunused-but-set-variable] 433 | *Set_ps1 [32], *Set_ps2 [32], *ps1, *ps2 ; | ^~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Supernodal/cholmod_super_numeric.c -o cholmod_l_super_numeric.o In file included from ../Supernodal/cholmod_super_numeric.c:82: ../Supernodal/t_cholmod_super_numeric.c: In function 'r_cholmod_super_numeric': ../Supernodal/t_cholmod_super_numeric.c:249: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 249 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:311: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 311 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:326: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 326 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:355: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 355 | #pragma omp parallel for private ( p, pend, pfend, pf, i, j, imap, q ) \ | ../Supernodal/t_cholmod_super_numeric.c:743: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 743 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:756: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 756 | #pragma omp parallel for private ( j, i, px, q ) \ | ../Supernodal/t_cholmod_super_numeric.c:116:9: warning: unused variable 'tail' [-Wunused-variable] 116 | tail, nscol_new = 0; | ^~~~ ../Supernodal/t_cholmod_super_numeric.c:113:9: warning: unused variable 'pj' [-Wunused-variable] 113 | pj, d, kd1, kd2, info, ndcol, ndrow, pdi, pdx, pdend, pdi1, pdi2, pdx1, | ^~ ../Supernodal/t_cholmod_super_numeric.c:111:10: warning: variable 'Previous' set but not used [-Wunused-but-set-variable] 111 | *Previous; | ^~~~~~~~ ../Supernodal/t_cholmod_super_numeric.c:108:33: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 108 | double *Lx, *Ax, *Fx, *Az, *Fz, *C ; | ^~ ../Supernodal/t_cholmod_super_numeric.c:108:28: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 108 | double *Lx, *Ax, *Fx, *Az, *Fz, *C ; | ^~ In file included from ../Supernodal/cholmod_super_numeric.c:84: ../Supernodal/t_cholmod_super_numeric.c: In function 'c_cholmod_super_numeric': ../Supernodal/t_cholmod_super_numeric.c:249: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 249 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:311: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 311 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:326: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 326 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:355: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 355 | #pragma omp parallel for private ( p, pend, pfend, pf, i, j, imap, q ) \ | ../Supernodal/t_cholmod_super_numeric.c:743: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 743 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:756: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 756 | #pragma omp parallel for private ( j, i, px, q ) \ | ../Supernodal/t_cholmod_super_numeric.c:116:9: warning: unused variable 'tail' [-Wunused-variable] 116 | tail, nscol_new = 0; | ^~~~ ../Supernodal/t_cholmod_super_numeric.c:113:9: warning: unused variable 'pj' [-Wunused-variable] 113 | pj, d, kd1, kd2, info, ndcol, ndrow, pdi, pdx, pdend, pdi1, pdi2, pdx1, | ^~ ../Supernodal/t_cholmod_super_numeric.c:111:10: warning: variable 'Previous' set but not used [-Wunused-but-set-variable] 111 | *Previous; | ^~~~~~~~ ../Supernodal/t_cholmod_super_numeric.c:108:33: warning: variable 'Fz' set but not used [-Wunused-but-set-variable] 108 | double *Lx, *Ax, *Fx, *Az, *Fz, *C ; | ^~ ../Supernodal/t_cholmod_super_numeric.c:108:28: warning: variable 'Az' set but not used [-Wunused-but-set-variable] 108 | double *Lx, *Ax, *Fx, *Az, *Fz, *C ; | ^~ In file included from ../Supernodal/cholmod_super_numeric.c:86: ../Supernodal/t_cholmod_super_numeric.c: In function 'z_cholmod_super_numeric': ../Supernodal/t_cholmod_super_numeric.c:249: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 249 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:311: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 311 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:326: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 326 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:355: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 355 | #pragma omp parallel for private ( p, pend, pfend, pf, i, j, imap, q ) \ | ../Supernodal/t_cholmod_super_numeric.c:743: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 743 | #pragma omp parallel for num_threads(CHOLMOD_OMP_NUM_THREADS) \ | ../Supernodal/t_cholmod_super_numeric.c:756: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 756 | #pragma omp parallel for private ( j, i, px, q ) \ | ../Supernodal/t_cholmod_super_numeric.c:116:9: warning: unused variable 'tail' [-Wunused-variable] 116 | tail, nscol_new = 0; | ^~~~ ../Supernodal/t_cholmod_super_numeric.c:113:9: warning: unused variable 'pj' [-Wunused-variable] 113 | pj, d, kd1, kd2, info, ndcol, ndrow, pdi, pdx, pdend, pdi1, pdi2, pdx1, | ^~ ../Supernodal/t_cholmod_super_numeric.c:111:10: warning: variable 'Previous' set but not used [-Wunused-but-set-variable] 111 | *Previous; | ^~~~~~~~ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Supernodal/cholmod_super_solve.c -o cholmod_l_super_solve.o In file included from ../Supernodal/cholmod_super_solve.c:26: ../Supernodal/t_cholmod_super_solve.c: In function 'r_cholmod_super_lsolve': ../Supernodal/t_cholmod_super_solve.c:30:17: warning: variable 'n' set but not used [-Wunused-but-set-variable] 30 | nsrow2, n, ps2, j, i, d, nrhs ; | ^ ../Supernodal/t_cholmod_super_solve.c: In function 'r_cholmod_super_ltsolve': ../Supernodal/t_cholmod_super_solve.c:238:17: warning: variable 'n' set but not used [-Wunused-but-set-variable] 238 | nsrow2, n, ps2, j, i, d, nrhs ; | ^ In file included from ../Supernodal/cholmod_super_solve.c:28: ../Supernodal/t_cholmod_super_solve.c: In function 'c_cholmod_super_lsolve': ../Supernodal/t_cholmod_super_solve.c:30:17: warning: variable 'n' set but not used [-Wunused-but-set-variable] 30 | nsrow2, n, ps2, j, i, d, nrhs ; | ^ ../Supernodal/t_cholmod_super_solve.c: In function 'c_cholmod_super_ltsolve': ../Supernodal/t_cholmod_super_solve.c:238:17: warning: variable 'n' set but not used [-Wunused-but-set-variable] 238 | nsrow2, n, ps2, j, i, d, nrhs ; | ^ gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -DDLONG -c ../Supernodal/cholmod_super_symbolic.c -o cholmod_l_super_symbolic.o ../Supernodal/cholmod_super_symbolic.c: In function 'cholmod_l_super_symbolic2': ../Supernodal/cholmod_super_symbolic.c:562:21: warning: variable 'totsize' set but not used [-Wunused-but-set-variable] 562 | Int totsize ; | ^~~~~~~ ../Supernodal/cholmod_super_symbolic.c:185:12: warning: unused variable 'max_fraction' [-Wunused-variable] 185 | double max_fraction; | ^~~~~~~~~~~~ ../Supernodal/cholmod_super_symbolic.c:184:17: warning: unused variable 'env_max_fraction' [-Wunused-variable] 184 | const char* env_max_fraction; | ^~~~~~~~~~~~~~~~ ../Supernodal/cholmod_super_symbolic.c:183:12: warning: unused variable 'max_bytes' [-Wunused-variable] 183 | size_t max_bytes; | ^~~~~~~~~ ../Supernodal/cholmod_super_symbolic.c:182:17: warning: unused variable 'env_max_bytes' [-Wunused-variable] 182 | const char* env_max_bytes; | ^~~~~~~~~~~~~ ../Supernodal/cholmod_super_symbolic.c:181:17: warning: unused variable 'env_use_gpu' [-Wunused-variable] 181 | const char* env_use_gpu; | ^~~~~~~~~~~ ar -rucs ../../CHOLMOD.a cholmod_aat.o cholmod_add.o cholmod_band.o cholmod_change_factor.o cholmod_common.o cholmod_complex.o cholmod_copy.o cholmod_dense.o cholmod_error.o cholmod_factor.o cholmod_memory.o cholmod_sparse.o cholmod_transpose.o cholmod_triplet.o cholmod_version.o cholmod_check.o cholmod_read.o cholmod_write.o cholmod_amd.o cholmod_analyze.o cholmod_colamd.o cholmod_etree.o cholmod_factorize.o cholmod_postorder.o cholmod_rcond.o cholmod_resymbol.o cholmod_rowcolcounts.o cholmod_rowfac.o cholmod_solve.o cholmod_spsolve.o cholmod_drop.o cholmod_horzcat.o cholmod_norm.o cholmod_scale.o cholmod_sdmult.o cholmod_ssmult.o cholmod_submatrix.o cholmod_vertcat.o cholmod_symmetry.o cholmod_rowadd.o cholmod_rowdel.o cholmod_updown.o cholmod_super_numeric.o cholmod_super_solve.o cholmod_super_symbolic.o cholmod_l_aat.o cholmod_l_add.o cholmod_l_band.o cholmod_l_change_factor.o cholmod_l_common.o cholmod_l_complex.o cholmod_l_copy.o cholmod_l_dense.o cholmod_l_error.o cholmod_l_factor.o cholmod_l_memory.o cholmod_l_sparse.o cholmod_l_transpose.o cholmod_l_triplet.o cholmod_l_version.o cholmod_l_check.o cholmod_l_read.o cholmod_l_write.o cholmod_l_amd.o cholmod_l_analyze.o cholmod_l_colamd.o cholmod_l_etree.o cholmod_l_factorize.o cholmod_l_postorder.o cholmod_l_rcond.o cholmod_l_resymbol.o cholmod_l_rowcolcounts.o cholmod_l_rowfac.o cholmod_l_solve.o cholmod_l_spsolve.o cholmod_l_drop.o cholmod_l_horzcat.o cholmod_l_norm.o cholmod_l_scale.o cholmod_l_sdmult.o cholmod_l_ssmult.o cholmod_l_submatrix.o cholmod_l_vertcat.o cholmod_l_symmetry.o cholmod_l_rowadd.o cholmod_l_rowdel.o cholmod_l_updown.o cholmod_l_super_numeric.o cholmod_l_super_solve.o cholmod_l_super_symbolic.o make[5]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/CHOLMOD/Lib' make[4]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/CHOLMOD' make[4]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/COLAMD' ( cd Source ; make -f "/builddir/build/BUILD/R-rc/etc/Makeconf" -f Makefile lib ) make[5]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/COLAMD/Source' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c colamd.c -o colamd.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDLONG -c colamd.c -o colamd_l.o ar -rucs ../../COLAMD.a colamd.o colamd_l.o make[5]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/COLAMD/Source' make[4]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/COLAMD' make[4]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/AMD' ( cd Source ; make -f "/builddir/build/BUILD/R-rc/etc/Makeconf" -f Makefile lib ) make[5]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/AMD/Source' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDINT -c amd_aat.c -o amd_i_aat.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDLONG -c amd_aat.c -o amd_l_aat.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDINT -c amd_1.c -o amd_i_1.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDLONG -c amd_1.c -o amd_l_1.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDINT -c amd_2.c -o amd_i_2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDLONG -c amd_2.c -o amd_l_2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDINT -c amd_postorder.c -o amd_i_postorder.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDLONG -c amd_postorder.c -o amd_l_postorder.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDINT -c amd_post_tree.c -o amd_i_post_tree.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDLONG -c amd_post_tree.c -o amd_l_post_tree.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDINT -c amd_defaults.c -o amd_i_defaults.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDLONG -c amd_defaults.c -o amd_l_defaults.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDINT -c amd_order.c -o amd_i_order.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDLONG -c amd_order.c -o amd_l_order.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDINT -c amd_control.c -o amd_i_control.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDLONG -c amd_control.c -o amd_l_control.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDINT -c amd_info.c -o amd_i_info.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDLONG -c amd_info.c -o amd_l_info.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDINT -c amd_valid.c -o amd_i_valid.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDLONG -c amd_valid.c -o amd_l_valid.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDINT -c amd_preprocess.c -o amd_i_preprocess.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDLONG -c amd_preprocess.c -o amd_l_preprocess.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDINT -c amd_dump.c -o amd_i_dump.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -I../Include -DDLONG -c amd_dump.c -o amd_l_dump.o ar -rucs ../../AMD.a amd_i_aat.o amd_l_aat.o amd_i_1.o amd_l_1.o amd_i_2.o amd_l_2.o amd_i_postorder.o amd_l_postorder.o amd_i_post_tree.o amd_l_post_tree.o amd_i_defaults.o amd_l_defaults.o amd_i_order.o amd_l_order.o amd_i_control.o amd_l_control.o amd_i_info.o amd_l_info.o amd_i_valid.o amd_l_valid.o amd_i_preprocess.o amd_l_preprocess.o amd_i_dump.o amd_l_dump.o make[5]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/AMD/Source' make[4]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/AMD' make[4]: Entering directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/SuiteSparse_config' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -DNTIMER -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c SuiteSparse_config.c -o SuiteSparse_config.o ar -rucs ../SuiteSparse_config.a SuiteSparse_config.o make[4]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src/SuiteSparse_config' gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o Matrix.so CHMfactor.o Csparse.o init.o Mutils.o chm_common.o cs.o cs_utils.o dense.o dgCMatrix.o dgeMatrix.o dpoMatrix.o dppMatrix.o dsCMatrix.o dsyMatrix.o dspMatrix.o dtCMatrix.o dtrMatrix.o dtpMatrix.o factorizations.o sparseQR.o sparseVector.o abIndex.o packedMatrix.o unpackedMatrix.o sparse.o subscript.o validity.o CHOLMOD.a COLAMD.a AMD.a SuiteSparse_config.a -lflexiblas -lflexiblas -lgfortran -lm -lquadmath -L/builddir/build/BUILD/R-rc/lib -lR make[3]: Leaving directory '/tmp/RtmpqdGUjO/R.INSTALL462076fd29be/Matrix/src' installing to /builddir/build/BUILD/R-rc/library/Matrix/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading Creating a generic function for 'zapsmall' from package 'base' in package 'Matrix' Creating a generic function for 'drop' from package 'base' in package 'Matrix' Creating a generic function for 'cov2cor' from package 'stats' in package 'Matrix' Creating a generic function for 'unname' 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" 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 '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 'diag<-' from package 'base' in package 'Matrix' Creating a generic function for 'crossprod' from package 'base' in package 'Matrix' Creating a generic function for 'tcrossprod' from package 'base' in package 'Matrix' 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 '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 'qr.R' from package 'base' in package 'Matrix' Creating a generic function for 'qr.Q' from package 'base' in package 'Matrix' Creating a generic function for 'qr.qy' 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.coef' 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.fitted' 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-methods html CAex html CHMfactor-class html Cholesky-class html Cholesky html CsparseMatrix-class html Diagonal html Hilbert html KNex html KhatriRao html LU-class html Matrix-class html Matrix-defunct html Matrix-deprecated html Matrix html MatrixClass html MatrixFactorization-class html RsparseMatrix-class html Schur-class html Schur html SparseM-conv html Subassign-methods html TsparseMatrix-class html USCounties html Xtrct-methods html abIndex-class html abIseq html all-methods html all.equal-methods html atomicVector-class html band html bandSparse html bdiag html boolean-matprod html cBind html chol html chol2inv-methods html colSums html compMatrix-class html condest html dMatrix-class html ddenseMatrix-class html ddiMatrix-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-def html dtpMatrix-class html dtrMatrix-class html expand html expm html externalFormats html facmul html fastMisc html forceSymmetric html formatSparseM html generalMatrix-class html graph2T html image-methods html indMatrix-class html index-class html invPerm html is.na-methods html is.null.DN html isSymmetric-methods html isTriangular html kronecker-methods html ldenseMatrix-class html ldiMatrix-class html lgeMatrix-class html lsparseMatrix-classes html lsyMatrix-class html ltrMatrix-class html lu html mat2triplet html matrix-products html nMatrix-class html ndenseMatrix-class html nearPD html ngeMatrix-class html nnzero html norm html nsparseMatrix-classes html nsyMatrix-class html ntrMatrix-class html number-class html pMatrix-class html packedMatrix-class html printSpMatrix html qr-methods html rankMatrix html rcond html rep2abI html replValue-class 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 symmetricMatrix-class html symmpart html triangularMatrix-class html uniqTsparse html unpack html unpackedMatrix-class html unused-classes html updown 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' ... ** package 'nlme' successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: 'gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' using Fortran compiler: 'GNU Fortran (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[3]: Entering directory '/tmp/RtmpS4ZkAa/R.INSTALL48a54ff6d83a/nlme/src' gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c chol.f -o chol.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: chol.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c corStruct.c -o corStruct.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c gnls.c -o gnls.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c matrix.c -o matrix.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c nlOptimizer.c -o nlOptimizer.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c nlme.c -o nlme.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c nlmefit.c -o nlmefit.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pdMat.c -o pdMat.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pythag.c -o pythag.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c rs.f -o rs.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: rs.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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-rc/lib -lR make[3]: Leaving directory '/tmp/RtmpS4ZkAa/R.INSTALL48a54ff6d83a/nlme/src' installing to /builddir/build/BUILD/R-rc/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' ... ** package 'survival' successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: 'gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[3]: Entering directory '/tmp/Rtmp7vjkuU/R.INSTALL48fc12fa8c52/survival/src' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c agexact.c -o agexact.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c agfit4.c -o agfit4.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c agfit5.c -o agfit5.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c agmart.c -o agmart.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c agmart3.c -o agmart3.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c agscore2.c -o agscore2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c agsurv4.c -o agsurv4.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c agsurv5.c -o agsurv5.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c cdecomp.c -o cdecomp.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c chinv2.c -o chinv2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c chinv3.c -o chinv3.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c cholesky2.c -o cholesky2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c cholesky3.c -o cholesky3.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c cholesky5.c -o cholesky5.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c chsolve2.c -o chsolve2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c chsolve3.c -o chsolve3.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c chsolve5.c -o chsolve5.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c collapse.c -o collapse.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c concordance1.c -o concordance1.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c concordance3.c -o concordance3.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c concordance5.c -o concordance5.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c cox_Rcallback.c -o cox_Rcallback.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxcount1.c -o coxcount1.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxdetail.c -o coxdetail.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxexact.c -o coxexact.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxfit5.c -o coxfit5.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxfit6.c -o coxfit6.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxmart.c -o coxmart.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxmart2.c -o coxmart2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxph_wtest.c -o coxph_wtest.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxsafe.c -o coxsafe.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxscho.c -o coxscho.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxscore2.c -o coxscore2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxsurv1.c -o coxsurv1.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxsurv2.c -o coxsurv2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxsurv3.c -o coxsurv3.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxsurv4.c -o coxsurv4.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dmatrix.c -o dmatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c doloop.c -o doloop.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c fastkm.c -o fastkm.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c finegray.c -o finegray.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c gchol.c -o gchol.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c multicheck.c -o multicheck.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c norisk.c -o norisk.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pyears1.c -o pyears1.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pyears2.c -o pyears2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pyears3b.c -o pyears3b.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pystep.c -o pystep.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c survConcordance.c -o survConcordance.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c survdiff2.c -o survdiff2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c survfit4.c -o survfit4.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c survfitci.c -o survfitci.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c survfitkm.c -o survfitkm.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c survfitresid.c -o survfitresid.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c survpenal.c -o survpenal.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c survreg6.c -o survreg6.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c survreg7.c -o survreg7.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c survregc1.c -o survregc1.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c survregc2.c -o survregc2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c survsplit.c -o survsplit.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c tmerge.c -o tmerge.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c zph1.c -o zph1.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c zph2.c -o zph2.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o survival.so agexact.o agfit4.o agfit5.o agmart.o agmart3.o agscore2.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 survConcordance.o survdiff2.o survfit4.o survfitci.o survfitkm.o survfitresid.o survpenal.o survreg6.o survreg7.o survregc1.o survregc2.o survsplit.o tmerge.o zph1.o zph2.o -L/builddir/build/BUILD/R-rc/lib -lR make[3]: Leaving directory '/tmp/Rtmp7vjkuU/R.INSTALL48fc12fa8c52/survival/src' installing to /builddir/build/BUILD/R-rc/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 Surv2data 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 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 gbsg html heart html is.ratetable html kidney html levels.Surv html lines.survfit html logLik.coxph html logan html lung html mgus html mgus2 html model.frame.coxph html model.matrix.coxph html myeloid html myeloma html nafld html neardate 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 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' ... ** 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' ... ** package 'cluster' successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: 'gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' using Fortran compiler: 'GNU Fortran (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[3]: Entering directory '/tmp/Rtmpppk9zd/R.INSTALL4a1d1d70e1d2/cluster/src' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c clara.c -o clara.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c daisy.f -o daisy.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: daisy.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dysta.f -o dysta.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dysta.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c fanny.c -o fanny.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c mona.c -o mona.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pam.c -o pam.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sildist.c -o sildist.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c spannel.c -o spannel.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c twins.c -o twins.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o cluster.so clara.o daisy.o dysta.o fanny.o init.o mona.o pam.o sildist.o spannel.o twins.o -lgfortran -lm -lquadmath -L/builddir/build/BUILD/R-rc/lib -lR make[3]: Leaving directory '/tmp/Rtmpppk9zd/R.INSTALL4a1d1d70e1d2/cluster/src' installing to /builddir/build/BUILD/R-rc/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' ... ** 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' ... ** package 'foreign' successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: 'gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[3]: Entering directory '/tmp/Rtmpos6JjS/R.INSTALL4a9275ec5813/foreign/src' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c R_systat.c -o R_systat.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c Rdbfread.c -o Rdbfread.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c Rdbfwrite.c -o Rdbfwrite.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c SASxport.c -o SASxport.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c avl.c -o avl.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c dbfopen.c -o dbfopen.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c file-handle.c -o file-handle.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c format.c -o format.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c minitab.c -o minitab.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pfm-read.c -o pfm-read.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sfm-read.c -o sfm-read.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c spss.c -o spss.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c stataread.c -o stataread.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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-rc/lib -lR make[3]: Leaving directory '/tmp/Rtmpos6JjS/R.INSTALL4a9275ec5813/foreign/src' installing to /builddir/build/BUILD/R-rc/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' ... ** package 'KernSmooth' successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: 'gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' using Fortran compiler: 'GNU Fortran (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[3]: Entering directory '/tmp/RtmpcLyOB3/R.INSTALL4af7799e20d6/KernSmooth/src' gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c blkest.f -o blkest.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: blkest.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c cp.f -o cp.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: cp.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dgedi.f -o dgedi.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dgedi.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dgefa.f -o dgefa.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dgefa.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c dgesl.f -o dgesl.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: dgesl.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c linbin.f -o linbin.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: linbin.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c linbin2D.f -o linbin2D.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: linbin2D.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c locpoly.f -o locpoly.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: locpoly.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c rlbin.f -o rlbin.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: rlbin.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c sdiag.f -o sdiag.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: sdiag.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules -flto -c sstdiag.f -o sstdiag.o f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: -D_FORTIFY_SOURCE not defined annobin: sstdiag.f: Warning: -D_GLIBCXX_ASSERTIONS not defined gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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 -lgfortran -lm -lquadmath -L/builddir/build/BUILD/R-rc/lib -lR make[3]: Leaving directory '/tmp/RtmpcLyOB3/R.INSTALL4af7799e20d6/KernSmooth/src' installing to /builddir/build/BUILD/R-rc/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' ... ** package 'rpart' successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: 'gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[3]: Entering directory '/tmp/RtmpKvLgKo/R.INSTALL4b514390d26b/rpart/src' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c anova.c -o anova.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c anovapred.c -o anovapred.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c branch.c -o branch.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c bsplit.c -o bsplit.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c choose_surg.c -o choose_surg.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c fix_cp.c -o fix_cp.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c free_tree.c -o free_tree.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c gini.c -o gini.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c graycode.c -o graycode.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c insert_split.c -o insert_split.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c make_cp_list.c -o make_cp_list.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c make_cp_table.c -o make_cp_table.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c mysort.c -o mysort.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c nodesplit.c -o nodesplit.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c partition.c -o partition.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c poisson.c -o poisson.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pred_rpart.c -o pred_rpart.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c print_tree.c -o print_tree.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rpart.c -o rpart.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rpart_callback.c -o rpart_callback.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rpartexp.c -o rpartexp.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rpartexp2.c -o rpartexp2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rpcountup.c -o rpcountup.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rpmatrix.c -o rpmatrix.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rundown.c -o rundown.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c rundown2.c -o rundown2.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c surrogate.c -o surrogate.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c usersplit.c -o usersplit.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c xpred.c -o xpred.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c xval.c -o xval.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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-rc/lib -lR make[3]: Leaving directory '/tmp/RtmpKvLgKo/R.INSTALL4b514390d26b/rpart/src' installing to /builddir/build/BUILD/R-rc/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' ... ** package 'class' successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: 'gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[3]: Entering directory '/tmp/Rtmp4v7Bup/R.INSTALL4be3774b1141/class/src' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c class.c -o class.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o class.so class.o -L/builddir/build/BUILD/R-rc/lib -lR make[3]: Leaving directory '/tmp/Rtmp4v7Bup/R.INSTALL4be3774b1141/class/src' installing to /builddir/build/BUILD/R-rc/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' ... ** package 'nnet' successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: 'gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[3]: Entering directory '/tmp/RtmpMpcxPh/R.INSTALL4c1b6a408b85/nnet/src' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c nnet.c -o nnet.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o nnet.so nnet.o -L/builddir/build/BUILD/R-rc/lib -lR make[3]: Leaving directory '/tmp/RtmpMpcxPh/R.INSTALL4c1b6a408b85/nnet/src' installing to /builddir/build/BUILD/R-rc/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' ... ** package 'spatial' successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: 'gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[3]: Entering directory '/tmp/RtmpUw4UjI/R.INSTALL4c5355dc94c/spatial/src' gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c krc.c -o krc.o gcc -I"/builddir/build/BUILD/R-rc/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c pps.c -o pps.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o spatial.so init.o krc.o pps.o -L/builddir/build/BUILD/R-rc/lib -lR make[3]: Leaving directory '/tmp/RtmpUw4UjI/R.INSTALL4c5355dc94c/spatial/src' installing to /builddir/build/BUILD/R-rc/library/spatial/libs ** R ** 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 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' ... ** package 'mgcv' successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: 'gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[3]: Entering directory '/tmp/RtmpZa5Xnu/R.INSTALL4c9134d8032c/mgcv/src' gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c coxph.c -o coxph.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c davies.c -o davies.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c discrete.c -o discrete.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c gdi.c -o gdi.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c init.c -o init.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c magic.c -o magic.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c mat.c -o mat.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c matrix.c -o matrix.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c mgcv.c -o mgcv.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c misc.c -o misc.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c mvn.c -o mvn.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c ncv.c -o ncv.o ncv.c: In function 'ncvls': ncv.c:877:98: warning: 'detacv' may be used uninitialized in this function [-Wmaybe-uninitialized] 877 | double *X,*H,*Hi,*l1,*l2,*l3=NULL,*beta,*g,*Hp,xx,z,*d,*d1,*cgwork,*eta,*deta,v,*db=NULL,*dbp,*detacv,*dh; | ^~~~~~ gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c qp.c -o qp.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c soap.c -o soap.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sparse-smooth.c -o sparse-smooth.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c sparse.c -o sparse.o gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c tprs.c -o tprs.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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 -lflexiblas -lgfortran -lm -lquadmath -fopenmp -L/builddir/build/BUILD/R-rc/lib -lR make[3]: Leaving directory '/tmp/RtmpZa5Xnu/R.INSTALL4c9134d8032c/mgcv/src' installing to /builddir/build/BUILD/R-rc/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 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 blas.thread.test html bug.reports.mgcv html cSplineDes html chol.down html choose.k html cnorm html columb html concurvity html coxph html coxpht html dDeta html dpnorm 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 full.score 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 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 ls.size html magic html magic.post.proc 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 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-rc/src/library/Recommended' make[1]: Leaving directory '/builddir/build/BUILD/R-rc/src/library/Recommended' make[1]: Entering directory '/builddir/build/BUILD/R-rc/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' ... processing 'reshape.Rnw' make[1]: Leaving directory '/builddir/build/BUILD/R-rc/src/library' make[1]: Entering directory '/builddir/build/BUILD/R-rc' configuring Java ... Java interpreter : /usr/bin/java Java version : 11.0.19 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) 11.3.1 20220421 (Red Hat 11.3.1-2)' make[2]: Entering directory '/tmp/Rjavareconf.pTFQD6' gcc -I"/builddir/build/BUILD/R-rc/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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -c conftest.c -o conftest.o gcc -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -fpic -L/builddir/build/BUILD/R-rc/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -o conftest.so conftest.o -L/usr/lib/jvm/jre/lib/server -ljvm -L/builddir/build/BUILD/R-rc/lib -lR make[2]: Leaving directory '/tmp/Rjavareconf.pTFQD6' 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-rc Done. make[1]: Leaving directory '/builddir/build/BUILD/R-rc' + cd src/nmath/standalone + make (cd ../../include; make Rmath.h) make[1]: Entering directory '/builddir/build/BUILD/R-rc/src/include' make[1]: 'Rmath.h' is up to date. make[1]: Leaving directory '/builddir/build/BUILD/R-rc/src/include' Copying source files make[1]: Entering directory '/builddir/build/BUILD/R-rc/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-rc/src/nmath/standalone' make[1]: Entering directory '/builddir/build/BUILD/R-rc/src/nmath/standalone' gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c mlutils.c -o mlutils.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c d1mach.c -o d1mach.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c i1mach.c -o i1mach.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fmax2.c -o fmax2.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fmin2.c -o fmin2.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fprec.c -o fprec.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fround.c -o fround.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c ftrunc.c -o ftrunc.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c sign.c -o sign.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fsign.c -o fsign.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c imax2.c -o imax2.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c imin2.c -o imin2.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c chebyshev.c -o chebyshev.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c log1p.c -o log1p.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c lgammacor.c -o lgammacor.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c gammalims.c -o gammalims.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c stirlerr.c -o stirlerr.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bd0.c -o bd0.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c gamma.c -o gamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c lgamma.c -o lgamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c gamma_cody.c -o gamma_cody.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c beta.c -o beta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c lbeta.c -o lbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c polygamma.c -o polygamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c cospi.c -o cospi.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_i.c -o bessel_i.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_j.c -o bessel_j.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_k.c -o bessel_k.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_y.c -o bessel_y.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c choose.c -o choose.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c snorm.c -o snorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c sexp.c -o sexp.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dgamma.c -o dgamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pgamma.c -o pgamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qgamma.c -o qgamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rgamma.c -o rgamma.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dbeta.c -o dbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pbeta.c -o pbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qbeta.c -o qbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rbeta.c -o rbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dunif.c -o dunif.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c punif.c -o punif.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qunif.c -o qunif.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c runif.c -o runif.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnorm.c -o dnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnorm.c -o pnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnorm.c -o qnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rnorm.c -o rnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dlnorm.c -o dlnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c plnorm.c -o plnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qlnorm.c -o qlnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rlnorm.c -o rlnorm.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c df.c -o df.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pf.c -o pf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qf.c -o qf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rf.c -o rf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnf.c -o dnf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dt.c -o dt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pt.c -o pt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qt.c -o qt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rt.c -o rt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnt.c -o dnt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dchisq.c -o dchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pchisq.c -o pchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qchisq.c -o qchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rchisq.c -o rchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rnchisq.c -o rnchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dbinom.c -o dbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pbinom.c -o pbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qbinom.c -o qbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rbinom.c -o rbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rmultinom.c -o rmultinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dcauchy.c -o dcauchy.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pcauchy.c -o pcauchy.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qcauchy.c -o qcauchy.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rcauchy.c -o rcauchy.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dexp.c -o dexp.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pexp.c -o pexp.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qexp.c -o qexp.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rexp.c -o rexp.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dgeom.c -o dgeom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pgeom.c -o pgeom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qgeom.c -o qgeom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rgeom.c -o rgeom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dhyper.c -o dhyper.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c phyper.c -o phyper.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qhyper.c -o qhyper.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rhyper.c -o rhyper.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnbinom.c -o dnbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnbinom.c -o pnbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnbinom.c -o qnbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnbinom_mu.c -o qnbinom_mu.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rnbinom.c -o rnbinom.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dpois.c -o dpois.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c ppois.c -o ppois.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qpois.c -o qpois.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rpois.c -o rpois.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dweibull.c -o dweibull.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pweibull.c -o pweibull.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qweibull.c -o qweibull.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rweibull.c -o rweibull.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dlogis.c -o dlogis.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c plogis.c -o plogis.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qlogis.c -o qlogis.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rlogis.c -o rlogis.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnchisq.c -o dnchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnchisq.c -o pnchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnchisq.c -o qnchisq.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnbeta.c -o dnbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnbeta.c -o pnbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnbeta.c -o qnbeta.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnf.c -o pnf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnt.c -o pnt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnf.c -o qnf.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnt.c -o qnt.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c ptukey.c -o ptukey.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qtukey.c -o qtukey.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c toms708.c -o toms708.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c wilcox.c -o wilcox.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c signrank.c -o signrank.o gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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-rc/src/nmath/standalone' make[1]: Entering directory '/builddir/build/BUILD/R-rc/src/nmath/standalone' gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c mlutils.c -o mlutils.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c d1mach.c -o d1mach.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c i1mach.c -o i1mach.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fmax2.c -o fmax2.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fmin2.c -o fmin2.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fprec.c -o fprec.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fround.c -o fround.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c ftrunc.c -o ftrunc.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c sign.c -o sign.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fsign.c -o fsign.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c imax2.c -o imax2.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c imin2.c -o imin2.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c chebyshev.c -o chebyshev.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c log1p.c -o log1p.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c lgammacor.c -o lgammacor.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c gammalims.c -o gammalims.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c stirlerr.c -o stirlerr.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bd0.c -o bd0.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c gamma.c -o gamma.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c lgamma.c -o lgamma.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c gamma_cody.c -o gamma_cody.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c beta.c -o beta.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c lbeta.c -o lbeta.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c polygamma.c -o polygamma.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c cospi.c -o cospi.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_i.c -o bessel_i.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_j.c -o bessel_j.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_k.c -o bessel_k.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c bessel_y.c -o bessel_y.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c choose.c -o choose.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c snorm.c -o snorm.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c sexp.c -o sexp.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dgamma.c -o dgamma.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pgamma.c -o pgamma.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qgamma.c -o qgamma.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rgamma.c -o rgamma.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dbeta.c -o dbeta.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pbeta.c -o pbeta.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qbeta.c -o qbeta.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rbeta.c -o rbeta.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dunif.c -o dunif.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c punif.c -o punif.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qunif.c -o qunif.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c runif.c -o runif.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnorm.c -o dnorm.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnorm.c -o pnorm.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnorm.c -o qnorm.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rnorm.c -o rnorm.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dlnorm.c -o dlnorm.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c plnorm.c -o plnorm.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qlnorm.c -o qlnorm.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rlnorm.c -o rlnorm.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c df.c -o df.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pf.c -o pf.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qf.c -o qf.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rf.c -o rf.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnf.c -o dnf.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dt.c -o dt.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pt.c -o pt.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qt.c -o qt.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rt.c -o rt.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnt.c -o dnt.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dchisq.c -o dchisq.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pchisq.c -o pchisq.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qchisq.c -o qchisq.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rchisq.c -o rchisq.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rnchisq.c -o rnchisq.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dbinom.c -o dbinom.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pbinom.c -o pbinom.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qbinom.c -o qbinom.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rbinom.c -o rbinom.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rmultinom.c -o rmultinom.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dcauchy.c -o dcauchy.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pcauchy.c -o pcauchy.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qcauchy.c -o qcauchy.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rcauchy.c -o rcauchy.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dexp.c -o dexp.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pexp.c -o pexp.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qexp.c -o qexp.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rexp.c -o rexp.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dgeom.c -o dgeom.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pgeom.c -o pgeom.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qgeom.c -o qgeom.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rgeom.c -o rgeom.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dhyper.c -o dhyper.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c phyper.c -o phyper.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qhyper.c -o qhyper.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rhyper.c -o rhyper.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnbinom.c -o dnbinom.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnbinom.c -o pnbinom.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnbinom.c -o qnbinom.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnbinom_mu.c -o qnbinom_mu.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rnbinom.c -o rnbinom.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dpois.c -o dpois.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c ppois.c -o ppois.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qpois.c -o qpois.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rpois.c -o rpois.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dweibull.c -o dweibull.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pweibull.c -o pweibull.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qweibull.c -o qweibull.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rweibull.c -o rweibull.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dlogis.c -o dlogis.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c plogis.c -o plogis.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qlogis.c -o qlogis.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rlogis.c -o rlogis.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnchisq.c -o dnchisq.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnchisq.c -o pnchisq.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnchisq.c -o qnchisq.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c dnbeta.c -o dnbeta.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnbeta.c -o pnbeta.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnbeta.c -o qnbeta.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnf.c -o pnf.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c pnt.c -o pnt.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnf.c -o qnf.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qnt.c -o qnt.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c ptukey.c -o ptukey.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c qtukey.c -o qtukey.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c toms708.c -o toms708.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c wilcox.c -o wilcox.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c signrank.c -o signrank.lo gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c std_unif.c -o std_unif.lo gcc -shared -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fpic -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -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-rc/src/nmath/standalone' + make pdf make[1]: Entering directory '/builddir/build/BUILD/R-rc/doc' make[2]: Entering directory '/builddir/build/BUILD/R-rc/doc/manual' creating doc/manual/version.tex collecting LaTeX docs for package 'base' ... 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It Underfull \hbox (badness 1028) in paragraph at lines 143--151 \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 143--151 []\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 143--151 \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 215--220 []\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 215--220 []\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 3009) in paragraph at lines 231--243 []\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] [7] Underfull \hbox (badness 10000) in paragraph at lines 374--378 [][][]\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 571--577 []\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 639--639 []\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 640--640 []\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) [14] [15] Overfull \hbox (4.38043pt too wide) in paragraph at lines 920--920 []\T1/pcr/m/n/9 all.equal(tan(d45), one, tolerance = 0, scale = 1+(-2:2)/1e9) # "absolute"[] [16] Overfull \hbox (4.38043pt too wide) in paragraph at lines 941--941 []\T1/pcr/m/n/9 mtext(paste("mean(all.equal(x1, x2*(1 + eps_k))) {100 x} Mean rel.diff.=",[] [17] Overfull \hbox (0.78088pt too wide) in paragraph at lines 990--990 []\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] Underfull \hbox (badness 1221) in paragraph at lines 1523--1529 []\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 1611--1617 Underfull \hbox (badness 10000) in paragraph at lines 1624--1626 []\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . orac le . 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 1966--1966 [] \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 1998--2001 []\T1/ptm/m/n/10 logical or in-te-ger; in-di-cat-ing if col-umn names with more than 256 (or [32] Underfull \hbox (badness 1325) in paragraph at lines 2027--2031 []\T1/ptm/m/n/10 Direct calls to []\T1/pcr/m/n/10 as.data.frame.() []\T1 /ptm/m/n/10 are still pos-si-ble (base pack-age!), for 12 Underfull \hbox (badness 3568) in paragraph at lines 2027--2031 \T1/ptm/m/n/10 atomic base classes, but will dep-re-cated (al-ready vis-i-bly b y set-ting en-vi-ron-ment vari- Underfull \hbox (badness 4144) in paragraph at lines 2027--2031 \T1/ptm/m/n/10 able []\T1/pcr/m/n/10 _R_CHECK_AS_DATA_FRAME_EXPLICIT_METHOD_ [] \T1/ptm/m/n/10 to non-empty) where call-ing [33] [34] [35] Overfull \hbox (112.38031pt too wide) in paragraph at lines 2267--2267 []\T1/pcr/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [36] Underfull \hbox (badness 10000) in paragraph at lines 2305--2307 []\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 2579--2579 []\T1/pcr/m/n/9 (now <- as.POSIXlt(Sys.time())) # the current datetime, as cla ss "POSIXlt"[] [41] [42] [43] Underfull \hbox (badness 1107) in paragraph at lines 2783--2785 []\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] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2950--2950 []\T1/pcr/m/n/10 attach(what, pos = 2L, name = deparse1(substitute(what), back tick=FALSE), [46] [47] [48] [49] [50] [51] [52] Underfull \hbox (badness 10000) in paragraph at lines 3413--3416 []\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 3718--3718 []\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 3749--3749 []\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 3750--3750 [] \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 3757--3757 []\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 3758--3758 [] \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 3761--3761 []\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 4209--4211 []\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] Underfull \hbox (badness 4927) in paragraph at lines 4714--4718 []\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 4714--4718 \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 [72] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4798--4798 [] \T1/pcr/m/n/10 Xchk = any(nas %in% c("X11", "jpeg", "png", "tif f")))[] [73] Underfull \hbox (badness 4595) in paragraph at lines 4872--4875 []\T1/ptm/m/n/10 is ICU avail-able for col-la-tion? See the help on [][]Com-par -i-son[][][] and [74] [75] [76] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5035--5035 []\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 5064--5070 []\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 5076--5079 []\T1/ptm/m/n/10 (only for data frame method:) log-i-cal in-di-cat-ing if uniqu e and valid [77] [78] [79] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5249--5249 []\T1/pcr/m/n/9 rbind(1:4, c = 2, "a++" = 10, dd, deparse.level = 1) # 3 rowna mes (default)[] [80] [81] [82] Underfull \hbox (badness 2521) in paragraph at lines 5505--5507 []\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 [83] [84] [85] [86] [87] [88] [89] [90] Underfull \hbox (badness 1270) in paragraph at lines 5997--6005 []\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", [91] [92] [93] [94] [95] [96] [97] [98] Underfull \hbox (badness 1796) in paragraph at lines 6571--6579 []\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 : / / [99] [100] [101] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6768--6768 []\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 6770--6770 []\T1/pcr/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6771--6771 []\T1/pcr/m/n/9 showC(NpNA)# but not always is {shows \TS1/pcr/m/n/9 '\T1/pcr /m/n/9 (R = NaN, I = NA)\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 on some platforms}[] [102] [103] Underfull \hbox (badness 1635) in paragraph at lines 6973--6976 []\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 6977--6980 []\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 [104] Underfull \hbox (badness 1308) in paragraph at lines 7020--7028 []\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 [105] [106] Overfull \hbox (30.78088pt too wide) in paragraph at lines 7184--7184 []\T1/pcr/m/n/10 unz(description, filename, open = "", encoding = getOption("e ncoding"))[] [107] Underfull \hbox (badness 4505) in paragraph at lines 7236--7239 []\T1/ptm/m/n/10 character string, par-tially matched to []\T1/pcr/m/n/10 c("de fault", "internal", [108] [109] Underfull \hbox (badness 1997) in paragraph at lines 7373--7378 []\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 unz[]\T1/ptm/m /n/10 , []\T1/pcr/m/n/10 socketConnection[]\T1/ptm/m/n/10 , [110] [111] [112] Underfull \hbox (badness 10000) in paragraph at lines 7621--7623 []\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 7663--7670 []\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 Underfull \hbox (badness 6592) in paragraph at lines 7663--7670 \T1/ptm/m/n/10 reads the X11 pri-mary se-lec-tion (see [][]$\T1/pcr/m/n/10 http s : / / specifications . freedesktop . Underfull \hbox (badness 1735) in paragraph at lines 7663--7670 []\T1/pcr/m/n/10 "X11_primary" []\T1/ptm/m/n/10 and the sec-ondary se-lec-tion as []\T1/pcr/m/n/10 "X11_secondary"[]\T1/ptm/m/n/10 . On most sys- [113] [114] [115] Underfull \vbox (badness 10000) has occurred while \output is active [116] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7878--7878 []\T1/pcr/m/n/9 A <- read.table(con <- file("students", encoding = "UCS-2LE")) ; close(con)[] [117] [118] [119] [120] Underfull \hbox (badness 10000) in paragraph at lines 8211--8213 []\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th e call to [121] [122] [123] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8369--8369 []\T1/pcr/m/n/9 curlGetHeaders("http://bugs.r-project.org") ## this redirect s to https://[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8371--8371 []\T1/pcr/m/n/9 ## curlGetHeaders("ftp://cran.r-project.org") ## ftp::// suppo rt is vanishing[] [124] [125] [126] [127] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8602--8602 []\T1/pcr/m/n/9 tm <- seq(as.POSIXct("2012-06-01 06:00"), by = "6 hours", leng th.out = 24)[] [128] Underfull \hbox (badness 10000) in paragraph at lines 8718--8728 []\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 8718--8728 [][][]\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 [129] [130] [131] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8886--8886 [] \T1/pcr/m/n/9 c = seq(as.Date("2004-01-01"), by = "week", l ength.out = 3),[] [132] [133] [134] [135] Underfull \hbox (badness 10000) in paragraph at lines 9214--9226 \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 [136] [137] [138] [139] [140] [141] [142] Underfull \hbox (badness 10000) in paragraph at lines 9758--9762 []\T1/pcr/m/n/10 .Defunct []\T1/ptm/m/n/10 is called from de-funct func-tions. Func-tions should be listed in [143] [144] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9849--9849 []\T1/pcr/m/n/9 ### Promises in an environment [for advanced users]: -------- -------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9851--9851 []\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 9879--9879 [] \T1/pcr/m/n/10 backtick = mode(expr) %in% c("call", "expression", "( ", "function"),[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 9880--9880 [] \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "sh owAttributes"),[] [145] [146] Underfull \hbox (badness 5403) in paragraph at lines 10011--10013 []\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 10030--10032 []\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 [147] [148] [149] Underfull \hbox (badness 1603) in paragraph at lines 10261--10264 []\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 [150] [151] [152] [153] [154] [155] [156] Overfull \hbox (12.78088pt too wide) in paragraph at lines 10726--10726 [] \T1/pcr/m/n/10 z <- as.POSIXct(c("2016-12-31 23:59:59", "2017-01-01 00:0 0:01"))[] [157] [158] Underfull \hbox (badness 1917) in paragraph at lines 10890--10895 []\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 [159] Overfull \hbox (36.7804pt too wide) in paragraph at lines 10945--10945 []\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 10946--10946 []\T1/pcr/m/n/9 strd(provideDimnames(A, base= list(c("AA","BB")))) # recycling on both levels[] [160] [161] Underfull \hbox (badness 1168) in paragraph at lines 11048--11053 []\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 [162] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11150--11150 []\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 11152--11152 []\T1/pcr/m/n/9 chk.n2 <- function(...) stopifnot(identical(print(...names()), names(list(...))))[] [163] [164] Underfull \hbox (badness 2828) in paragraph at lines 11271--11276 [][][]$\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 11271--11276 \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 11271--11276 \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 : Overfull \hbox (42.78088pt too wide) in paragraph at lines 11302--11302 [] \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "showA ttributes"))[] [165] Overfull \hbox (15.18042pt too wide) in paragraph at lines 11376--11376 []\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, ..[] [166] [167] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11525--11525 []\T1/pcr/m/n/9 aq <- transform(airquality, Month = factor(Month, labels = mon th.abb[5:9])) [168] [169] [170] Underfull \hbox (badness 6396) in paragraph at lines 11723--11731 []\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 11732--11734 []\T1/pcr/m/n/10 duplicated(x, fromLast = TRUE) []\T1/ptm/m/n/10 is equiv-a-len t to but faster than [171] [172] [173] Underfull \hbox (badness 10000) in paragraph at lines 11949--11952 []\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 [174] [175] [176] [177] [178] [179] Underfull \hbox (badness 2744) in paragraph at lines 12393--12395 []\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 [180] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12416--12416 []\T1/pcr/m/n/9 Encoding(x.) # "unknown" (UTF-8 loc.) | "latin1" (8859-1/CP-12 52 loc.) | ....[] [181] [182] [183] Underfull \hbox (badness 5288) in paragraph at lines 12668--12670 []\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 12678--12683 []\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 [184] Underfull \hbox (badness 10000) in paragraph at lines 12735--12738 []\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 12753--12755 []\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for [185] [186] [187] [188] Underfull \hbox (badness 10000) in paragraph at lines 13003--13005 []\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 13046--13048 []\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 [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13869--13869 []\T1/pcr/m/n/9 ## "avector" := vector that keeps attributes. Could provide a constructor[] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] Underfull \hbox (badness 2253) in paragraph at lines 14597--14599 []\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 14632--14635 []\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m a-tion is given about the [211] [212] Underfull \hbox (badness 2573) in paragraph at lines 14765--14767 []\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 = [213] [214] Underfull \hbox (badness 10000) in paragraph at lines 14924--14926 []\T1/ptm/m/n/10 logical: should file dates be pre-served where pos-si-ble? See [215] [216] Underfull \hbox (badness 10000) in paragraph at lines 15045--15049 [][][]\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 15056--15059 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . Overfull \hbox (47.58038pt too wide) in paragraph at lines 15077--15077 [] \T1/pcr/m/n/9 # |--> (TRUE,FALSE) : ok for A but not B as it exists already[] [217] Overfull \hbox (30.78088pt too wide) in paragraph at lines 15102--15102 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode = "0777")[] [218] Underfull \hbox (badness 10000) in paragraph at lines 15199--15202 [][][]\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 15209--15209 []\T1/pcr/m/n/9 f <- list.files(".", all.files = TRUE, full.names = TRUE, recu rsive = TRUE)[] [219] Underfull \hbox (badness 10000) in paragraph at lines 15275--15278 []\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 15292--15292 []\T1/pcr/m/n/9 ## will not give an error, maybe a warning about *all* locatio ns it is found:[] [220] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15321--15321 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F ALSE, Underfull \hbox (badness 3965) in paragraph at lines 15353--15357 []\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, [221] [222] [223] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15517--15517 [] \T1/pcr/m/n/10 .C(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO DING) Overfull \hbox (0.78088pt too wide) in paragraph at lines 15518--15518 [] \T1/pcr/m/n/10 .Fortran(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO DING)[] [224] [225] [226] [227] Overfull \hbox (63.78036pt too wide) in paragraph at lines 15760--15760 []\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 15763--15763 []\T1/pcr/m/n/9 ## formals returns NULL for primitive functions. Use it in co mbination with[] [228] Underfull \hbox (badness 1168) in paragraph at lines 15849--15853 []\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 15849--15853 \T1/ptm/m/n/10 tor should be en-coded in sci-en-tific for-mat, or an in-te-ger penalty (see [229] Underfull \hbox (badness 6944) in paragraph at lines 15946--15949 [][][]\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 , [230] Overfull \hbox (4.38043pt too wide) in paragraph at lines 15971--15971 []\T1/pcr/m/n/9 z <- list(a = letters[1:3], b = (-pi+0i)^((-2:2)/2), c = c(1,1 0,100,1000),[] [231] [232] Underfull \hbox (badness 10000) in paragraph at lines 16109--16111 []\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 16129--16129 [] \T1/pcr/m/n/10 decimal.mark = getOption("OutDec"), input.d.mark = decimal.mark,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16135--16135 []\T1/pcr/m/n/10 .format.zeros(x, zero.print, nx = suppressWarnings(as.numeric (x)),[] Underfull \hbox (badness 2790) in paragraph at lines 16142--16145 []\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 [233] Underfull \hbox (badness 1024) in paragraph at lines 16173--16180 []\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 [234] Underfull \hbox (badness 10000) in paragraph at lines 16248--16250 []\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 16270--16275 []\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 16276--16278 []\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 = Underfull \hbox (badness 10000) in paragraph at lines 16287--16295 []\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 [235] [236] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16395--16395 []\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 ")[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 16417--16417 []\T1/pcr/m/n/9 doLC <- FALSE # <= R warns, so change to TRUE manually if you want see the effect[] Underfull \vbox (badness 10000) has occurred while \output is active [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17251--17251 []\T1/pcr/m/n/9 utils::tail(getLoadedDLLs(), 2) # the last 2 loaded ones, stil l a DLLInfoList[] [249] [250] Underfull \hbox (badness 2418) in paragraph at lines 17360--17364 \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 , Underfull \hbox (badness 6510) in paragraph at lines 17367--17370 []\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 17402--17409 [][][]\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 , [251] [252] Underfull \hbox (badness 10000) in paragraph at lines 17509--17513 []\T1/ptm/m/n/10 The spe-cial case []\T1/pcr/m/n/10 bindtextdomain(NULL) []\T1/ ptm/m/n/10 calls C level Underfull \hbox (badness 3302) in paragraph at lines 17509--17513 []\T1/pcr/m/n/10 textdomain(textdomain(NULL)) []\T1/ptm/m/n/10 for the pur-pose of flush-ing (i.e., emp-ty-ing) the [253] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17572--17572 []\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 17575--17575 []\T1/pcr/m/n/9 gettext(enT, domain="R-stats")# "leeres Modell angegeben" (if translation works)[] Underfull \vbox (badness 10000) has occurred while \output is active [254] Overfull \hbox (15.18042pt too wide) in paragraph at lines 17606--17606 []\T1/pcr/m/n/9 ## Here, we reset to the *original* setting before the full ex ample started:[] [255] [256] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17743--17743 []\T1/pcr/m/n/10 grep(pattern, x, ignore.case = FALSE, perl = FALSE, value = F ALSE, Underfull \hbox (badness 1867) in paragraph at lines 17771--17778 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [257] [258] [259] [260] [261] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18089--18089 [] \T1/pcr/m/n/9 nms <- nms[is.na(match(nms, c("F","T")))] # <-- work around "checking hack"[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 18118--18118 []\T1/pcr/m/n/9 name.rex <- "(?[[:upper:]][[:lower:]]+) (?[[:uppe r:]][[:lower:]]+)"[] Underfull \vbox (badness 10000) has occurred while \output is active [262] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18174--18174 [] \T1/pcr/m/n/10 value = FALSE, fixed = FALSE, all = FALSE, invert = F ALSE)[] [263] [264] [265] [266] [267] Overfull \hbox (9.78043pt too wide) in paragraph at lines 18567--18567 []\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))) [268] Overfull \hbox (4.38043pt too wide) in paragraph at lines 18632--18632 []\T1/pcr/m/n/9 z <- gzcon(url("https://www.stats.ox.ac.uk/pub/datasets/csb/ch 12.dat.gz"))[] [269] [270] [271] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18845--18845 []\T1/pcr/m/n/10 iconv(x, from = "", to = "", sub = NA, mark = TRUE, toRaw = F ALSE) [272] [273] [274] [275] Underfull \hbox (badness 1163) in paragraph at lines 19189--19191 []\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 / [276] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19197--19197 []\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.[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 19227--19227 []\T1/pcr/m/n/10 identical(x, y, num.eq = TRUE, single.NA = TRUE, attrib.as.se t = TRUE, [277] Overfull \hbox (30.78088pt too wide) in paragraph at lines 19321--19321 [] \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 19322--19322 [] \T1/pcr/m/n/10 ignore.bytecode = FALSE, ignore.environment = F ALSE,[] [278] Overfull \hbox (25.98041pt too wide) in paragraph at lines 19375--19375 []\T1/pcr/m/n/9 ### For functions ("closure"s): ------------------------------ ----------------[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 19381--19381 []\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 19384--19384 []\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 19390--19390 []\T1/pcr/m/n/9 op <- options(keep.source = TRUE) # and so, these have differi ng "srcref" :[] [279] [280] Overfull \hbox (4.38043pt too wide) in paragraph at lines 19517--19517 []\T1/pcr/m/n/9 ## This is a (not atypical) case where it is better *not* to u se ifelse(),[] [281] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19525--19525 []\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):[] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 19730--19732 []\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 [284] [285] [286] [287] [288] Underfull \hbox (badness 10000) in paragraph at lines 20070--20076 Underfull \hbox (badness 10000) in paragraph at lines 20083--20085 []\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . orac le . com / cd / E19957-[]01 / 806-[]3568 / ncg _ [289] [290] [291] Underfull \hbox (badness 4699) in paragraph at lines 20315--20318 []\T1/pcr/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 , [292] [293] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20443--20443 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = " GMT")[] [294] [295] [296] Underfull \hbox (badness 4739) in paragraph at lines 20578--20580 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [297] Overfull \hbox (36.7804pt too wide) in paragraph at lines 20627--20627 []\T1/pcr/m/n/9 isSymmetric(D3) # FALSE (as row and co lumn names differ)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 20628--20628 []\T1/pcr/m/n/9 isSymmetric(D3, check.attributes=FALSE) # TRUE (as names are not checked)[] [298] [299] Underfull \hbox (badness 2961) in paragraph at lines 20805--20808 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / [300] [301] [302] [303] [304] [305] [306] Underfull \hbox (badness 1975) in paragraph at lines 21246--21249 []\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 [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 1077) in paragraph at lines 21662--21667 []\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 Underfull \hbox (badness 10000) in paragraph at lines 21676--21683 [][][]$\T1/pcr/m/n/10 https : / / curl . se / docs / sslcerts . html$[][] \T1/p tm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / curl . se / docs / [313] Underfull \hbox (badness 1112) in paragraph at lines 21749--21758 []\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 , [314] Underfull \hbox (badness 2970) in paragraph at lines 21807--21810 []\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 21807--21810 \T1/ptm/m/n/10 hid-den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [315] [316] Underfull \hbox (badness 10000) in paragraph at lines 21920--21924 []\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 21920--21924 [][][]\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 21925--21932 []\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- [317] [318] Underfull \hbox (badness 10000) in paragraph at lines 22054--22061 [][][]\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 , [319] Underfull \hbox (badness 10000) in paragraph at lines 22175--22179 []\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 [320] Underfull \hbox (badness 5161) in paragraph at lines 22245--22250 []\T1/ptm/m/n/10 A small num-ber of files (some of the API header files) are di s-tributed un-der the Underfull \hbox (badness 6592) in paragraph at lines 22245--22250 \T1/ptm/m/n/10 LESSER GNU GEN-ERAL PUB-LIC LI-CENSE, ver-sion 2.1 or later. A c opy of Underfull \hbox (badness 5133) in paragraph at lines 22245--22250 \T1/ptm/m/n/10 this li-cense is in file `\T1/pcr/m/n/10 $R_SHARE_DIR/licenses/L GPL-2.1\T1/ptm/m/n/10 ' and can be viewed Underfull \hbox (badness 10000) in paragraph at lines 22245--22250 \T1/ptm/m/n/10 by []\T1/pcr/m/n/10 RShowDoc("LGPL-2.1")[]\T1/ptm/m/n/10 . Ver-s ion 3 of the li-cense can be dis-played by [321] [322] [323] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22413--22413 [] \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22417--22417 [] \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = FALSE)[] [324] Underfull \hbox (badness 3343) in paragraph at lines 22478--22482 [][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil e.access[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 files[][][] []\T1/ptm/ m/n/10 for many more file han-dling func-tions and [325] [326] Overfull \hbox (4.38043pt too wide) in paragraph at lines 22616--22616 [] \T1/pcr/m/n/9 identical(L$b, e$b)) # "$" working for environments as for lists[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 22627--22627 [] \T1/pcr/m/n/9 df = data.frame(x = rnorm(20), y = rbinom(20, 1, prob = 0.2))),[] [327] [328] Overfull \hbox (9.78043pt too wide) in paragraph at lines 22738--22738 []\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 22741--22741 []\T1/pcr/m/n/9 attach("all.rda") # safer and will warn about masked objects w / same name in .GlobalEnv[] Underfull \hbox (badness 6380) in paragraph at lines 22788--22796 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup- [329] [330] Underfull \hbox (badness 2564) in paragraph at lines 22891--22894 []\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 Overfull \hbox (4.38043pt too wide) in paragraph at lines 22932--22932 []\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 22936--22936 []\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 22940--22940 []\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 22947--22947 []\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 22949--22949 []\T1/pcr/m/n/9 Sys.setenv("LANGUAGE" = "es") # set the language for error/war ning messages[] [331] Overfull \hbox (42.18039pt too wide) in paragraph at lines 22957--22957 [] \T1/pcr/m/n/9 sg <- matrix(unlist(strsplit(strsplit(Sys.getlocale(), sep)[[ 1]], "=")), nrow=2)[] [332] [333] Underfull \hbox (badness 1400) in paragraph at lines 23118--23122 [][][]\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 [334] [335] [336] [337] [338] [339] [340] [341] [342] [343] [344] [345] Overfull \hbox (52.98038pt too wide) in paragraph at lines 23960--23960 []\T1/pcr/m/n/9 zN <- c(complex(real = NA , imaginary = r ), complex(real = r , imaginary = NA ),[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 23961--23961 [] \T1/pcr/m/n/9 complex(real = r , imaginary = NaN), complex(real = N aN, imaginary = r ))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 23964--23964 []\T1/pcr/m/n/9 zM ##--> many "NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s" (= 1) and th e four non-NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s (3 different ones, at 7,9,10)[] [346] [347] Overfull \hbox (20.58041pt too wide) in paragraph at lines 24061--24061 []\T1/pcr/m/n/9 match.arg(c("a", ""), c("", NA, "bb", "abc"), several.ok=TRUE ) # |--> "abc"[] Underfull \hbox (badness 1655) in paragraph at lines 24095--24099 []\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion (also known as a `clo-sure'): [348] [349] [350] [351] Underfull \hbox (badness 2277) in paragraph at lines 24346--24349 []\T1/ptm/m/n/10 For ma-trix \T1/ptm/m/it/10 cross\T1/ptm/m/n/10 products, [][] []\T1/pcr/m/n/10 crossprod[][][]() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 tcross prod() []\T1/ptm/m/n/10 are typ-i-cally prefer-able. [352] [353] [354] [355] [356] [357] [358] [359] [360] Underfull \hbox (badness 1484) in paragraph at lines 24933--24941 []\T1/ptm/m/n/10 The address-space limit is 2Gb un-der 32-bit Win-dows un-less the OS's de-fault has been Underfull \hbox (badness 1152) in paragraph at lines 24933--24941 \T1/ptm/m/n/10 changed to al-low more (up to 3Gb). See [][]$\T1/pcr/m/n/10 http s : / / docs . microsoft . com / en-[]gb / [361] Overfull \hbox (0.78088pt too wide) in paragraph at lines 25007--25007 [] \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y = all,[] [362] [363] [364] [365] [366] [367] [368] [369] Underfull \hbox (badness 1448) in paragraph at lines 25554--25562 []\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 = [370] Underfull \hbox (badness 3849) in paragraph at lines 25669--25674 []\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 [371] Underfull \hbox (badness 2165) in paragraph at lines 25746--25752 []\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 25746--25752 \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 25746--25752 \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, [372] [373] [374] Underfull \hbox (badness 2237) in paragraph at lines 25909--25911 []\T1/ptm/m/n/10 character string: par-tial match-ing to one of []\T1/pcr/m/n/1 0 c("bytes", "chars", [375] [376] [377] Underfull \hbox (badness 6188) in paragraph at lines 26136--26139 []\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 [378] [379] [380] Underfull \hbox (badness 1521) in paragraph at lines 26321--26335 \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- [381] [382] [383] [384] Underfull \hbox (badness 2197) in paragraph at lines 26635--26639 []\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 26635--26639 []\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 [385] Underfull \hbox (badness 2846) in paragraph at lines 26649--26653 []\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 26649--26653 \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 26691--26691 []\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 26695--26695 [] \T1/pcr/m/n/10 keep.parse.data = getOption("keep.parse.data.pk gs"))[] [386] Underfull \hbox (badness 10000) in paragraph at lines 26744--26750 []\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 26744--26750 []\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 26757--26759 []\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% [387] Overfull \hbox (4.38043pt too wide) in paragraph at lines 26824--26824 [] \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 interchangably here:[] [388] [389] [390] Underfull \hbox (badness 8189) in paragraph at lines 27019--27025 []\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[][][] [391] [392] [393] Underfull \hbox (badness 2591) in paragraph at lines 27245--27253 \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 [394] [395] [396] [397] Underfull \hbox (badness 1603) in paragraph at lines 27527--27529 []\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a re con-verted by [398] [399] Underfull \hbox (badness 1210) in paragraph at lines 27654--27662 []\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- [400] [401] Underfull \hbox (badness 3271) in paragraph at lines 27874--27877 []\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men t vari-able [402] [403] [404] Underfull \hbox (badness 3138) in paragraph at lines 28180--28186 []\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 28180--28186 \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 28180--28186 \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 [405] Underfull \hbox (badness 1194) in paragraph at lines 28193--28196 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/pcr/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/pcr/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 1389) in paragraph at lines 28219--28221 []\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 28246--28252 []\T1/ptm/m/n/10 logical: should per-directory pack-age lock-ing be used by Underfull \hbox (badness 3826) in paragraph at lines 28261--28266 []\T1/ptm/m/n/10 Used by [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly [406] Underfull \hbox (badness 1009) in paragraph at lines 28279--28282 []\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 Underfull \hbox (badness 10000) in paragraph at lines 28295--28298 []\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle d -- see Underfull \hbox (badness 10000) in paragraph at lines 28303--28309 []\T1/pcr/m/n/10 "source" []\T1/ptm/m/n/10 (the de-fault ex-cept un-der a CRAN ma-cOS Underfull \hbox (badness 10000) in paragraph at lines 28303--28309 \T1/ptm/m/n/10 build), []\T1/pcr/m/n/10 "mac.binary" []\T1/ptm/m/n/10 and []\T1 /pcr/m/n/10 "both" []\T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS Underfull \hbox (badness 10000) in paragraph at lines 28303--28309 \T1/ptm/m/n/10 builds). ([]\T1/pcr/m/n/10 "mac.binary.el-capitan"[]\T1/ptm/m/n/ 10 , []\T1/pcr/m/n/10 "mac.binary.mavericks"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 5091) in paragraph at lines 28303--28309 []\T1/pcr/m/n/10 "mac.binary.leopard" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "ma c.binary.universal" []\T1/ptm/m/n/10 are no longer [407] [408] [409] [410] [411] Overfull \hbox (4.38043pt too wide) in paragraph at lines 28675--28675 []\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 28688--28692 []\T1/ptm/m/n/10 where el-e-ment []\T1/pcr/m/n/10 A[c(arrayindex.x, arrayindex. y)] = FUN(X[arrayindex.x], [412] [413] Underfull \hbox (badness 1210) in paragraph at lines 28835--28838 []\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, [414] [415] [416] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29031--29031 []\T1/pcr/m/n/9 tryCatch(parse(text = txt, srcfile = sf), error = function(e) "Syntax error.")[] [417] Underfull \hbox (badness 7133) in paragraph at lines 29117--29123 [][][]\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 29139--29139 []\T1/pcr/m/n/9 ## Notice that the recycling rules make every input as long as the longest input.[] [418] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29151--29151 []\T1/pcr/m/n/9 paste("1st", "2nd", "3rd", collapse = ", ") # probably not wha t you wanted[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 29164--29164 []\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 more vectorized behaviour, i.e. zero-length recycling : [] Overfull \hbox (63.78036pt too wide) in paragraph at lines 29168--29168 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- good: empty!", recycle0= TRUE) # -> character(0)[] [419] [420] [421] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29356--29356 []\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 29374--29374 []\T1/pcr/m/n/9 stop() |> (function(...) {})() # stop() is not used on RHS so is not evaluated[] [422] Underfull \hbox (badness 1360) in paragraph at lines 29429--29433 []\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 = [423] [424] [425] [426] Underfull \hbox (badness 2277) in paragraph at lines 29741--29746 \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 [427] [428] Underfull \hbox (badness 1701) in paragraph at lines 29857--29861 []\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 = [429] Underfull \hbox (badness 1796) in paragraph at lines 29925--29928 []\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 [430] [431] [432] [433] Underfull \hbox (badness 10000) in paragraph at lines 30129--30132 []\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 [434] [435] [436] [437] [438] [439] [440] [441] Underfull \hbox (badness 2961) in paragraph at lines 30675--30678 []\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 : / / [442] [443] Overfull \hbox (25.98041pt too wide) in paragraph at lines 30824--30824 [] \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))[] [444] [445] [446] [447] Overfull \hbox (15.18042pt too wide) in paragraph at lines 31117--31117 []\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 31128--31128 []\T1/pcr/m/n/9 n2 <- "\U0126\U0119\U1114\U022d\U2001\U03e2\U0954\U0f3f\U13d3\ U147b\U203c"[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 31134--31134 []\T1/pcr/m/n/9 ## https://cran.r-project.org/doc/manuals/r-release/R-lang.htm l#Literal-constants[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 31140--31140 []\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 [448] [449] Underfull \hbox (badness 7415) in paragraph at lines 31237--31243 []\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$os []\T1/ptm/m/n/10 to test the plat-form the code is run-ning on: use Overfull \hbox (42.18039pt too wide) in paragraph at lines 31261--31261 []\T1/pcr/m/n/9 mtext(R.version.string, side = 1, line = 4, adj = 1) # a usefu l bottom-right note[] [450] Overfull \hbox (6.78088pt too wide) in paragraph at lines 31307--31307 []\T1/pcr/m/n/10 set.seed(seed, kind = NULL, normal.kind = NULL, sample.kind = NULL)[] [451] [452] Underfull \hbox (badness 3713) in paragraph at lines 31452--31463 []\T1/pcr/m/n/10 normal.kind []\T1/ptm/m/n/10 can be []\T1/pcr/m/n/10 "Kinderma n-Ramage"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Buggy Kinderman-Ramage" []\T1/ptm /m/n/10 (not [453] Underfull \hbox (badness 1248) in paragraph at lines 31604--31611 \T1/ptm/m/n/10 uni-form pseudo-random num-ber gen-er-a-tor, \T1/ptm/m/it/10 ACM Trans-ac-tions on Mod-el-ing and Com-puter Underfull \hbox (badness 10000) in paragraph at lines 31604--31611 \T1/ptm/m/n/10 Now see [][]$\T1/pcr/m/n/10 http : / / www . math . sci . hirosh ima-[]u . ac . jp / ~m-[]mat / MT / VERSIONS / [454] [455] Underfull \hbox (badness 1533) in paragraph at lines 31722--31725 []\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 [456] [457] Overfull \hbox (42.78088pt too wide) in paragraph at lines 31867--31867 [] \T1/pcr/m/n/10 ties.method = c("average", "first", "last", "random", "m ax", "min"))[] [458] Underfull \hbox (badness 1038) in paragraph at lines 31885--31896 []\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 [459] [460] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32029--32029 []\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 32031--32031 []\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 32032--32032 []\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 32033--32033 []\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 32034--32034 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", h ow = "unlist")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32041--32041 []\T1/pcr/m/n/9 rapply(E, nchar, classes = "character", deflt = NA_integer_, h ow = "unlist")[] [461] [462] [463] [464] [465] Overfull \hbox (25.98041pt too wide) in paragraph at lines 32349--32349 []\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 32351--32351 []\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 32361--32361 []\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 32362--32362 []\T1/pcr/m/n/9 d2b <- function(x) vapply(as.double(x), function(x) numToBits(x) , raw(64L))[] [466] Underfull \hbox (badness 4048) in paragraph at lines 32457--32462 []\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 32457--32462 \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 32457--32462 \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 , [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 2080) in paragraph at lines 32997--33007 []\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), [475] Overfull \hbox (4.38043pt too wide) in paragraph at lines 33031--33031 []\T1/pcr/m/n/9 ## or examine the object via a connection, which will be opene d as needed.[] [476] [477] [478] [479] [480] [481] [482] Underfull \hbox (badness 7558) in paragraph at lines 33551--33555 []\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 33561--33563 []\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 Underfull \hbox (badness 10000) in paragraph at lines 33572--33574 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / Underfull \hbox (badness 1975) in paragraph at lines 33575--33579 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/pc r/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/pcr/m /n/10 https : / / www . [483] [484] Underfull \vbox (badness 10000) has occurred while \output is active [485] [486] [487] [488] Overfull \hbox (4.38043pt too wide) in paragraph at lines 33946--33946 []\T1/pcr/m/n/9 rep(1:4, each = 2, times = 3) # length 24, 3 complete replications[] [489] Underfull \hbox (badness 10000) in paragraph at lines 34017--34021 [][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] [] []NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple x_[][][] [490] [491] [492] Underfull \hbox (badness 2302) in paragraph at lines 34245--34250 []\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 34245--34250 \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 - [493] [494] Overfull \hbox (12.78088pt too wide) in paragraph at lines 34378--34378 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"))[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 34381--34381 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 34388--34388 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"),[] [495] [496] [497] [498] [499] [500] [501] Overfull \hbox (66.78088pt too wide) in paragraph at lines 34836--34836 [] \T1/pcr/m/n/10 useHash = (n > 1e+07 && !replace && is.null(prob) && size <= n/2))[] [502] [503] [504] [505] [506] [507] Overfull \hbox (12.78088pt too wide) in paragraph at lines 35273--35273 [] \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, skipNul = FALSE)[] [508] [509] Underfull \hbox (badness 1158) in paragraph at lines 35377--35382 []\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 [510] [511] Overfull \hbox (15.18042pt too wide) in paragraph at lines 35563--35563 []\T1/pcr/m/n/9 cat("TITLE extra line", "2 3 5 7", "11 13 17", file = "ex.data ", sep = "\n") [512] [513] [514] Underfull \hbox (badness 4752) in paragraph at lines 35822--35825 []\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 35826--35832 []\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 [515] [516] [517] [518] [519] [520] [521] [522] [523] Underfull \hbox (badness 6094) in paragraph at lines 36412--36416 []\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 36412--36416 \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 [524] [525] Underfull \hbox (badness 3826) in paragraph at lines 36503--36514 []\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 36503--36514 \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 36503--36514 \T1/ptm/m/n/10 are given at [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / en-[]us / cpp / c-[]language / Underfull \hbox (badness 1635) in paragraph at lines 36503--36514 \T1/pcr/m/n/10 parsing-[]c-[]command-[]line-[]arguments ? view = msvc-[]160$[][ ]\T1/ptm/m/n/10 . It may de-pend on the [526] [527] [528] [529] [530] [531] [532] [533] Overfull \hbox (66.78088pt too wide) in paragraph at lines 37057--37057 [] \T1/pcr/m/n/10 method = c("auto", "shell", "quick", "radix"), index .return = FALSE)[] [534] [535] [536] [537] Overfull \hbox (6.78088pt too wide) in paragraph at lines 37309--37309 [] \T1/pcr/m/n/10 print. = TRUE, echo = TRUE, max.deparse.length = Inf,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 37311--37311 [] \T1/pcr/m/n/10 deparseCtrl = c("keepInteger", "showAttributes" , "keepNA"),[] Underfull \hbox (badness 4954) in paragraph at lines 37354--37360 [][][]\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 37354--37360 [][][]\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 [538] [539] Overfull \hbox (20.58041pt too wide) in paragraph at lines 37465--37465 []\T1/pcr/m/n/9 ## (all should look "as if on top level", e.g. non-assignments should print:)[] [540] [541] [542] [543] [544] Overfull \hbox (4.38043pt too wide) in paragraph at lines 37808--37808 []\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 37823--37823 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is being added[] [545] [546] [547] Underfull \hbox (badness 10000) in paragraph at lines 38048--38050 [][][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / [548] [549] [550] Overfull \hbox (12.78088pt too wide) in paragraph at lines 38275--38275 []\T1/pcr/m/n/10 srcfile(filename, encoding = getOption("encoding"), Enc = "un known") Overfull \hbox (12.78088pt too wide) in paragraph at lines 38276--38276 []\T1/pcr/m/n/10 srcfilecopy(filename, lines, timestamp = Sys.time(), isFile = FALSE)[] [551] [552] [553] [554] [555] Overfull \hbox (63.78036pt too wide) in paragraph at lines 38607--38607 []\T1/pcr/m/n/9 startsWith(search(), "package:") # typically at least two FALS E, nowadays often three [556] Underfull \hbox (badness 6110) in paragraph at lines 38703--38713 []\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 38703--38713 \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 38703--38713 \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 38703--38713 \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 38703--38713 \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 [557] Underfull \hbox (badness 10000) in paragraph at lines 38759--38765 []\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 38759--38765 \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 38759--38765 \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 38774--38781 []\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 38774--38781 \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 38774--38781 \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 [558] Overfull \hbox (4.38043pt too wide) in paragraph at lines 38836--38836 []\T1/pcr/m/n/9 # Variable expansion in double quotes, string literals with ba ckslashes in[] [559] [560] [561] Underfull \hbox (badness 1484) in paragraph at lines 39009--39013 []\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 39074--39074 [] \T1/pcr/m/n/10 assert <- function(exprs) eval.parent(substitute(stopifnot(e xprs = exprs))) [562] [563] Underfull \hbox (badness 1436) in paragraph at lines 39176--39180 []\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 [564] [565] [566] [567] [568] Overfull \hbox (15.18042pt too wide) in paragraph at lines 39569--39569 []\T1/pcr/m/n/9 z3 # prints without fractional seconds by default, digits.sec = NULL ("= 0")[] [569] Overfull \hbox (9.78043pt too wide) in paragraph at lines 39597--39597 []\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 39598--39598 []\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")[] [570] Overfull \hbox (0.78088pt too wide) in paragraph at lines 39710--39710 [] \T1/pcr/m/n/10 add the string to the left of the match to the ou tput.[] [571] [572] [573] [574] Overfull \hbox (6.78088pt too wide) in paragraph at lines 39973--39973 [] \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p refix)[] [575] Overfull \hbox (4.38043pt too wide) in paragraph at lines 40017--40017 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll apse = "\n")[] [576] [577] [578] [579] [580] [581] Overfull \hbox (52.98038pt too wide) in paragraph at lines 40464--40464 []\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 40467--40467 []\T1/pcr/m/n/9 ## If there are missing values, the sum is unknown, i.e., also missing, ....[] [582] Underfull \hbox (badness 10000) in paragraph at lines 40518--40525 []\T1/ptm/m/n/10 integer, used for num-ber for-mat-ting with [][][]\T1/pcr/m/n/ 10 signif[][][]() []\T1/ptm/m/n/10 (for Underfull \hbox (badness 10000) in paragraph at lines 40518--40525 []\T1/pcr/m/n/10 summary.default[]\T1/ptm/m/n/10 ) or [][][]\T1/pcr/m/n/10 form at[][][]() []\T1/ptm/m/n/10 (for []\T1/pcr/m/n/10 summary.data.frame[]\T1/ptm/m /n/10 ). [583] Overfull \hbox (4.38043pt too wide) in paragraph at lines 40571--40571 []\T1/pcr/m/n/9 summary(attenu, digits = 4) #-> summary.data.frame(...), defau lt precision [584] [585] [586] [587] [588] Overfull \hbox (31.3804pt too wide) in paragraph at lines 40885--40885 [] \T1/pcr/m/n/9 cat(ch,":", switch(EXPR = ch, a =, A = 1, b = 2:3, "Otherw ise: last"),"\n")[] [589] [590] [591] Overfull \hbox (20.58041pt too wide) in paragraph at lines 41090--41090 []\T1/pcr/m/n/9 if(.Platform$OS.type == "unix") ## on Unix-alikes such Linux, macOS, FreeBSD:[] [592] Underfull \hbox (badness 2293) in paragraph at lines 41120--41126 []\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 41120--41126 \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 41139--41144 []\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 41139--41144 []\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 [593] [594] [595] [596] Underfull \hbox (badness 10000) in paragraph at lines 41427--41431 []\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 Underfull \hbox (badness 1584) in paragraph at lines 41442--41445 []\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 [597] [598] Overfull \hbox (25.98041pt too wide) in paragraph at lines 41580--41580 []\T1/pcr/m/n/9 is.symlink <- function(paths) isTRUE(nzchar(Sys.readlink(paths ), keepNA=TRUE))[] [599] Overfull \hbox (19.22812pt too wide) in paragraph at lines 41661--41661 []\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 [600] [601] [602] Underfull \hbox (badness 1082) in paragraph at lines 41806--41809 []\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 Underfull \hbox (badness 10000) in paragraph at lines 41833--41835 [][][]\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 [603] [604] [605] Underfull \hbox (badness 1038) in paragraph at lines 41999--42002 []\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 [606] [607] [608] [609] [610] Underfull \hbox (badness 1442) in paragraph at lines 42364--42368 \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 = [611] [612] [613] [614] Underfull \hbox (badness 4096) in paragraph at lines 42618--42621 []\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 , [615] Underfull \hbox (badness 7888) in paragraph at lines 42732--42736 []\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) > [616] [617] [618] Overfull \hbox (63.78036pt too wide) in paragraph at lines 42894--42894 [] \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 42896--42896 [] \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 42898--42898 [] \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 42911--42913 []\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 [619] Underfull \hbox (badness 10000) in paragraph at lines 42991--42994 [][][]\T1/pcr/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . [620] [621] Underfull \hbox (badness 3872) in paragraph at lines 43109--43112 []\T1/ptm/m/n/10 Duncan Tem-ple Lang (2001) \T1/ptm/m/it/10 Top-level Task Call -backs in R\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / developer . [622] Underfull \hbox (badness 5475) in paragraph at lines 43175--43179 [][][]\T1/pcr/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/pcr/m/n/10 https : / / [623] [624] [625] [626] [627] [628] Underfull \hbox (badness 1655) in paragraph at lines 43598--43605 \T1/ptm/m/n/10 may also be known as `[]\T1/pcr/m/n/10 GB[]\T1/ptm/m/n/10 ', `[] \T1/pcr/m/n/10 GB-Eire[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Belfast[]\T1 /ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Guernsey[]\T1/ptm/m/n/10 ', Underfull \hbox (badness 2253) in paragraph at lines 43606--43611 []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-turns a char-ac-ter vec-tor, se e the ex-am-ples for typ-i-cal cases. It may Underfull \hbox (badness 1655) in paragraph at lines 43606--43611 \T1/ptm/m/n/10 have an at-tribute []\T1/pcr/m/n/10 "Version"[]\T1/ptm/m/n/10 , some-thing like `[]\T1/pcr/m/n/10 "2023a"[]\T1/ptm/m/n/10 '. (It does on sys-te ms us-ing [629] Underfull \hbox (badness 4467) in paragraph at lines 43656--43665 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re- turns the time-zone names known to the cur-rently se- Underfull \hbox (badness 3954) in paragraph at lines 43656--43665 \T1/ptm/m/n/10 lected Ol-son/IANA database. The system-specific lo-ca-tion in t he file sys-tem varies, [630] Underfull \hbox (badness 1337) in paragraph at lines 43759--43767 \T1/ptm/m/n/10 a file `\T1/pcr/m/n/10 localtime\T1/ptm/m/n/10 ', usu-ally un-de r `\T1/pcr/m/n/10 /etc\T1/ptm/m/n/10 ' (but pos-si-bly un-der `\T1/pcr/m/n/10 / usr/local/etc\T1/ptm/m/n/10 ' or Underfull \hbox (badness 10000) in paragraph at lines 43768--43771 []\T1/ptm/m/n/10 `Because the time zone iden-ti-fier is ex-tracted from the sym -link tar-get name of [631] Underfull \hbox (badness 3460) in paragraph at lines 43824--43827 [][][]$\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 43828--43830 [][][]$\T1/pcr/m/n/10 https : / / data . iana . org / time-[]zones / theory . h tml$[][] \T1/ptm/m/n/10 for the `rules' of the Ol- Overfull \hbox (31.3804pt too wide) in paragraph at lines 43837--43837 []\T1/pcr/m/n/9 ## typically some acronyms/aliases such as "UTC", "NZ", "MET", "Eire", ..., but[] [632] [633] [634] [635] [636] Overfull \hbox (15.18042pt too wide) in paragraph at lines 44180--44180 []\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 44182--44182 []\T1/pcr/m/n/9 power.t.test(20, 1, power=0.8, sd=NULL) ##--> showing the ncp root finding:[] [637] [638] Overfull \hbox (84.78088pt too wide) in paragraph at lines 44282--44282 [] \T1/pcr/m/n/10 getOption("deparse .max.lines", -1L)))[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 44284--44284 [] \T1/pcr/m/n/10 getOption("deparse .max.lines", -1L)))[] [639] [640] [641] Underfull \hbox (badness 6542) in paragraph at lines 44558--44560 []\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 [642] [643] Overfull \hbox (30.78088pt too wide) in paragraph at lines 44677--44677 []\T1/pcr/m/n/10 trimws(x, which = c("both", "left", "right"), whitespace = "[ \t\r\n]") [644] Underfull \hbox (badness 1708) in paragraph at lines 44745--44753 []\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 44745--44753 \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 [645] Underfull \hbox (badness 4859) in paragraph at lines 44785--44790 [][][]\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; [646] Underfull \hbox (badness 3895) in paragraph at lines 44847--44859 []\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 44847--44859 \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 , [647] [648] [649] [650] [651] Overfull \hbox (9.78043pt too wide) in paragraph at lines 45195--45195 []\T1/pcr/m/n/9 ll <- list(as.name("sinc"), quote( a + b ), 1:10, letters, exp ression(1+x))[] [652] [653] Underfull \hbox (badness 1137) in paragraph at lines 45289--45296 []\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 [654] [655] [656] [657] [658] Overfull \hbox (4.38043pt too wide) in paragraph at lines 45667--45667 []\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 45676--45676 []\T1/pcr/m/n/9 system(paste("od -x", foo)) # 2-byte units, correct on little- endian platforms[] [659] Underfull \hbox (badness 2057) in paragraph at lines 45742--45748 [][][]\T1/pcr/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/pcr/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , Underfull \hbox (badness 3861) in paragraph at lines 45751--45756 [][][]\T1/pcr/m/n/10 dir.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 di r.exists[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 normalizePath[][][][]\T1/ ptm/m/n/10 , [][][]\T1/pcr/m/n/10 path.expand[][][][]\T1/ptm/m/n/10 , [][][]\T1 /pcr/m/n/10 pipe[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Sys.glob[][][][]\ T1/ptm/m/n/10 , [660] Overfull \hbox (36.7804pt too wide) in paragraph at lines 45844--45844 []\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[] [661] Underfull \hbox (badness 1803) in paragraph at lines 45907--45910 []\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 45911--45917 []\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 [662] [663] [664] [665] Underfull \hbox (badness 3668) in paragraph at lines 46140--46142 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [666] Overfull \hbox (36.78088pt too wide) in paragraph at lines 46246--46246 [] \T1/pcr/m/n/10 header = ngettext(n, "Warning message:\n", "Warning mes sages:\n"),[] [667] Overfull \hbox (4.38043pt too wide) in paragraph at lines 46321--46321 []\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 46329--46329 []\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 ...[] [668] Underfull \hbox (badness 1783) in paragraph at lines 46394--46396 []\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., [669] Overfull \hbox (25.98041pt too wide) in paragraph at lines 46424--46424 []\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 46436--46436 []\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 46439--46439 []\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[] [670] Underfull \hbox (badness 10000) in paragraph at lines 46501--46506 []\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 46501--46506 []\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 [671] Underfull \hbox (badness 2818) in paragraph at lines 46597--46603 []\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 [672] Overfull \hbox (15.18042pt too wide) in paragraph at lines 46632--46632 []\T1/pcr/m/n/9 ## Find the first occurrence, i.e. the first TRUE, if there is at least one:[] [673] [674] [675] [676] [677] [678] Underfull \hbox (badness 2846) in paragraph at lines 47091--47095 []\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 [679] Overfull \hbox (4.38043pt too wide) in paragraph at lines 47131--47131 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char acter vector[] Underfull \hbox (badness 3209) in paragraph at lines 47152--47156 []\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 [680]) (./compiler-pkg.tex Chapter 2. [681] Underfull \hbox (badness 2884) in paragraph at lines 106--120 []\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 106--120 \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 [682] [683] [684]) (./datasets-pkg.tex Chapter 3. [685] [686] [687] [688] [689] Overfull \hbox (15.18042pt too wide) in paragraph at lines 301--301 [] \T1/pcr/m/n/9 plot(ff, data = anscombe, col = "red", pch = 21, bg = "orang e", cex = 1.2,[] [690] 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)[] Underfull \vbox (badness 1472) has occurred while \output is active [691] [692] [693] [694] Overfull \hbox (4.38043pt too wide) in paragraph at lines 617--617 [] \T1/pcr/m/n/9 start = c(lrc = log(.35)), algorithm = "plinear", t race = TRUE)[] [695] Underfull \hbox (badness 4779) in paragraph at lines 704--707 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [696] [697] Underfull \hbox (badness 4779) in paragraph at lines 837--840 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [698] [699] [700] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [701] Underfull \hbox (badness 4779) in paragraph at lines 1152--1155 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [702] [703] [704] [705] [706] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1464--1464 []\T1/pcr/m/n/9 plot(names(te), te, type = "h", main = f.tit, xlab = "Eruption time (sec)")[] [707] [708] Underfull \hbox (badness 10000) in paragraph at lines 1549--1552 []\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 1549--1552 []\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 [709] [710] [711] Underfull \hbox (badness 4779) in paragraph at lines 1738--1741 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [712] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1832--1832 []\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 1840--1840 [] \T1/pcr/m/n/9 model3 <- clogit(case ~ spontaneous+induced+strata(stratum), data = infert)[] [713] [714] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1956--1956 [] \T1/pcr/m/n/9 sub(" W.",".Width", dn i3[[2]])))),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1957--1957 [] \T1/pcr/m/n/9 Species = gl(3, 50, labels = sub("S", "s", sub("V", "v", d ni3[[3]]))))[] [715] [716] [717] [718] Underfull \hbox (badness 4779) in paragraph at lines 2160--2163 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [719] [720] [721] Overfull \vbox (4.29591pt too high) has occurred while \output is active [722] [723] [724] [725] [726] Underfull \hbox (badness 4779) in paragraph at lines 2725--2728 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [727] Overfull \vbox (13.87083pt too high) has occurred while \output is active [728] Underfull \vbox (badness 2376) has occurred while \output is active [729] [730] [731] [732] [733] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3154--3154 []\T1/pcr/m/n/9 pairs(quakes, main = "Fiji Earthquakes, N = 1000", cex.main = 1.2, pch = ".")[] [734] [735] [736] [737] [738] [739] Overfull \hbox (47.58038pt too wide) in paragraph at lines 3505--3505 []\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 3507--3507 []\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 3508--3508 []\T1/pcr/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis t.html#Geographic%20Centers[] [740] [741] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3639--3639 [] \T1/pcr/m/n/9 ## The yearly series *is* close to the averages of t he monthly one:[] [742] [743] [744] Underfull \hbox (badness 4779) in paragraph at lines 3787--3790 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [745] [746] [747] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3996--3996 [] \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of supplement")[] Underfull \hbox (badness 10000) in paragraph at lines 4034--4036 []\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 4034--4036 \T1/pcr/m/n/10 20110523225828 / http : / / www . ltrr . arizona . edu / ~hallma n / sitephotos / [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761]) (./grDevices-pkg.tex [762] Chapter 4. [763] [764] [765] [766] Underfull \hbox (badness 4752) in paragraph at lines 298--303 []\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/p tm/m/n/10 in [767] [768] [769] [770] Overfull \hbox (6.78088pt too wide) in paragraph at lines 519--519 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d .pdf",[] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] Underfull \hbox (badness 5175) in paragraph at lines 1193--1195 []\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 [781] [782] [783] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1364--1364 []\T1/pcr/m/n/9 zapsmall(lab <- convertColor(cols, from = "sRGB", to = "Lab", scale.in = 255))[] [784] [785] [786] Underfull \hbox (badness 3302) in paragraph at lines 1625--1629 []\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 1625--1629 []\T1/pcr/m/n/10 c("LinearGradient", "RadialGradient", "TilingPattern") [787] [788] [789] [790] [791] Underfull \hbox (badness 1565) in paragraph at lines 1916--1921 []\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 1916--1921 \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 [792] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1999--1999 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res = 72,[] [793] Underfull \hbox (badness 1184) in paragraph at lines 2040--2050 []\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 2040--2050 []\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 , [794] Underfull \hbox (badness 10000) in paragraph at lines 2152--2154 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [795] [796] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2288--2288 []\T1/pcr/m/n/10 embedGlyphs(file, glyphInfo, outfile = file, options = charac ter())[] [797] Underfull \hbox (badness 6758) in paragraph at lines 2338--2341 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [798] [799] Underfull \hbox (badness 2326) in paragraph at lines 2456--2466 []\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 2456--2466 \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 2456--2466 \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 2456--2466 []\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 [800] [801] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2559--2559 []\T1/pcr/m/n/9 dragplot <- function(..., xlim = NULL, ylim = NULL, xaxs = "r" , yaxs = "r") {[] Underfull \vbox (badness 10000) has occurred while \output is active [802] [803] [804] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2815--2815 []\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 2816--2816 []\T1/pcr/m/n/10 grey.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re v = FALSE)[] [805] [806] [807] [808] [809] Underfull \hbox (badness 10000) in paragraph at lines 3089--3090 Underfull \vbox (badness 10000) has occurred while \output is active [810] [811] [812] [813] [814] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3422--3422 []\T1/pcr/m/n/10 colorConverter(toXYZ, fromXYZ, name, white = NULL, vectorized = FALSE)[] [815] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3506--3506 []\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 3507--3507 []\T1/pcr/m/n/9 (hex <- convertColor(luv, from = "Luv", to = hexcolor, scale. out = NULL))[] [816] [817] [818] Underfull \hbox (badness 10000) in paragraph at lines 3665--3671 []\T1/pcr/m/n/10 nclass.FD []\T1/ptm/m/n/10 uses the Freedman-Diaconis choice b ased on the inter-quartile range [819] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3740--3740 []\T1/pcr/m/n/10 palette.colors(n = NULL, palette = "Okabe-Ito", alpha, recycl e = FALSE)[] [820] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3824--3824 []\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 3844--3844 []\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 3851--3851 [] \T1/pcr/m/n/9 matplot(x, type = "l", lwd = 4, lty = 1, col = 1:8, ylab = "", main=main)[] [821] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3907--3907 []\T1/pcr/m/n/10 hcl.colors(n, palette = "viridis", alpha = NULL, rev = FALSE, fixup = TRUE) [822] Underfull \hbox (badness 8170) in paragraph at lines 3936--3939 []\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 , [823] Underfull \hbox (badness 2189) in paragraph at lines 3997--4002 []\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, Underfull \hbox (badness 10000) in paragraph at lines 4035--4039 \T1/pcr/m/n/10 wikipedia . org / w / index . php ? title = HCL _ color _ space & oldid = 883465135$[][]\T1/ptm/m/n/10 . [824] Underfull \vbox (badness 10000) has occurred while \output is active [825] Underfull \hbox (badness 5260) in paragraph at lines 4165--4168 []\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 [826] [827] [828] [829] [830] Underfull \hbox (badness 5939) in paragraph at lines 4504--4509 []\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 , [831] [832]pdfTeX warning (ext4): destination with the same identifier (name{Rf n.symbol}) has been already used, duplicate ignored \relax l.4681 \aliasA{symbol}{plotmath}{symbol} [833] [834] [835] [836] [837] [838] Overfull \hbox (60.78088pt too wide) in paragraph at lines 5025--5025 [] \T1/pcr/m/n/10 compression = c("none", "rle", "lzw", "jpeg", "zip", "lz w+p", "zip+p"),[] [839] [840] Underfull \hbox (badness 1348) in paragraph at lines 5231--5234 []\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 [841] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5255--5255 []\T1/pcr/m/n/9 ## Not run: dev.print(png, file = "myplot.png", width = 1024, height = 768)[] Underfull \hbox (badness 7522) in paragraph at lines 5296--5302 []\T1/ptm/m/n/10 For use with []\T1/pcr/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a []\T1/pcr/m/n/10 printf []\T1/ptm/m/n/10 for-mat such as [842] Underfull \hbox (badness 1112) in paragraph at lines 5329--5333 []\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" [843] [844] Underfull \hbox (badness 1755) in paragraph at lines 5473--5475 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [845] [846] Underfull \hbox (badness 7344) in paragraph at lines 5653--5655 []\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 5664--5668 [][][]\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 [847] [848] Underfull \hbox (badness 1552) in paragraph at lines 5791--5800 []\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 5791--5800 []\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 5791--5800 []\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 5801--5803 []\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 5833--5839 []\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 [849] Underfull \hbox (badness 5388) in paragraph at lines 5859--5861 []\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 / [850] [851] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5963--5963 []\T1/pcr/m/n/9 ## time ranges in diverse scales:% also in ../../../../tests/r eg-tests-1c.R[] [852] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6075--6075 []\T1/pcr/m/n/10 quartz.save(file, type = "png", device = dev.cur(), dpi = 100 , ...)[] [853] [854] Underfull \hbox (badness 10000) in paragraph at lines 6162--6164 []\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 [855] [856] [857] [858] [859] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6529--6529 []\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 6543--6546 []\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 [860] [861] [862] [863] [864] [865] Overfull \hbox (0.78088pt too wide) in paragraph at lines 6878--6878 []\T1/pcr/m/n/10 windows(width, height, pointsize, record, rescale, xpinch, yp inch, Overfull \hbox (0.78088pt too wide) in paragraph at lines 6885--6885 []\T1/pcr/m/n/10 win.metafile(filename = "", width = 7, height = 7, pointsize = 12,[] [866] [867] [868] [869] Underfull \hbox (badness 10000) in paragraph at lines 7151--7156 []\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 7151--7156 []\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 7151--7156 []\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 [870] Overfull \hbox (36.7804pt too wide) in paragraph at lines 7257--7257 []\T1/pcr/m/n/9 windows() # make sure we have the right device type (availabl e on Windows only)[] [871] Underfull \hbox (badness 3590) in paragraph at lines 7296--7299 []\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 7296--7299 \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 7307--7307 [] \T1/pcr/m/n/10 fonts, family, xpos, ypos, title, type, antialias, symbol family)[] [872] Underfull \hbox (badness 1189) in paragraph at lines 7372--7374 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [873] Underfull \hbox (badness 10000) in paragraph at lines 7477--7479 []\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [874] Underfull \hbox (badness 10000) in paragraph at lines 7523--7530 []\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 7523--7530 []\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 [875] Underfull \hbox (badness 5607) in paragraph at lines 7607--7611 []\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 [876] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7659--7659 [] \T1/pcr/m/n/9 function(...) grDevices::X11.options(width = 8, height = 6, xpos = 0,[] [877] [878] Underfull \hbox (badness 5637) in paragraph at lines 7791--7797 []\T1/pcr/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Helvetica" []\T1 /ptm/m/n/10 (the de-fault), []\T1/pcr/m/n/10 "Helvetica-Narrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1721) in paragraph at lines 7824--7827 []\T1/ptm/m/n/10 Windows users can make use of Win-FIG ([][]$\T1/pcr/m/n/10 htt p : / / www . schmidt-[]web-[]berlin . de / [879] [880] Overfull \hbox (63.78036pt too wide) in paragraph at lines 7959--7959 []\T1/pcr/m/n/9 op <- options(warn = 2)# ==> warnings would be errors, we supp ress the one "we know":[] [881] Underfull \hbox (badness 1231) in paragraph at lines 7998--8000 []\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 [882] [883]) (./graphics-pkg.tex [884] Chapter 5. Underfull \hbox (badness 4647) in paragraph at lines 16--18 []\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 = [885] [886] [887] [888] [889] [890] [891] Overfull \hbox (6.05087pt too wide) in paragraph at lines 450--450 [] \T1/pcr/m/n/10 gap.axis <- if(perpendicular(side, las)) 0.25 else 1[] Underfull \hbox (badness 4048) in paragraph at lines 482--488 []\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 [892] [893] Overfull \hbox (47.58038pt too wide) in paragraph at lines 580--580 []\T1/pcr/m/n/9 ## now shrink the window (in x- and y-direction) and observe t he axis labels drawn[] [894] Overfull \hbox (15.18042pt too wide) in paragraph at lines 692--692 []\T1/pcr/m/n/9 axis.Date(3, at = as.integer(as.Date("2023-04-01")), col.axis = "darkgreen")[] [895] Overfull \hbox (15.18042pt too wide) in paragraph at lines 707--707 []\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 712--712 []\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 713--713 [] \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 719--719 []\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 746--750 []\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 746--750 [][][]\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 [896] [897] Overfull \hbox (4.38043pt too wide) in paragraph at lines 833--833 [] \T1/pcr/m/n/9 axp = c(get_axp(usr.i), n = 3), log = TRUE, n intLog = 5))[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 870--870 [] \T1/pcr/m/n/10 add = FALSE, ann = !add && par("ann"), args.legend = NULL, ...)[] [898] [899] Underfull \hbox (badness 10000) in paragraph at lines 1017--1021 [][][]\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. [900] Overfull \hbox (133.98029pt too wide) in paragraph at lines 1034--1034 [] \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 1036--1036 []\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 1038--1038 []\T1/pcr/m/n/9 mosaicplot(xt[,,"Male"], main = "mosaicplot(Freq ~ Class + Sur vived, *)", color=TRUE)[] Underfull \vbox (badness 10000) has occurred while \output is active [901] [902] [903] [904] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1322--1322 []\T1/pcr/m/n/9 # *add* notches (somewhat funny here <--> warning "notches .. outside hinges"):[] [905] [906] [907] Underfull \hbox (badness 2503) in paragraph at lines 1484--1493 \T1/ptm/m/n/10 when []\T1/pcr/m/n/10 horizontal []\T1/ptm/m/n/10 is false, and []\T1/pcr/m/n/10 xlim []\T1/ptm/m/n/10 hor-i-zon-tally. []\T1/pcr/m/n/10 xaxt[] \T1/ptm/m/n/10 , []\T1/pcr/m/n/10 yaxt[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3375) in paragraph at lines 1519--1521 []\T1/ptm/m/n/10 whisker line type (de-fault: []\T1/pcr/m/n/10 "dashed"[]\T1/pt m/m/n/10 ), [908] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1593--1593 []\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 1594--1594 []\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 1600--1600 []\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 1601--1601 [] \T1/pcr/m/n/9 medlwd = 3, medcol = "white", whisklty = 3, outl ty = 1, outpch = NA)[] [909] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1634--1634 [] \T1/pcr/m/n/10 yaxlabels = NULL, xlim = NULL, ylim = c(0, 1), weights = NU LL, ...)[] [910] [911] [912] [913] Underfull \hbox (badness 10000) in paragraph at lines 1907--1913 [][][]\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 [914] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1927--1927 []\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 1939--1939 []\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 1955--1955 []\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 1964--1964 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = "" , ylab = "")[] [915] [916] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2049--2049 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col umns, [917] [918] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2178--2178 []\T1/pcr/m/n/9 coplot(lat ~ long | depth, data = quakes, given.values = given .depth, rows = 1)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2183--2183 []\T1/pcr/m/n/9 coplot(ll.dm, data = quakes, number = c(4, 7), show.given = c( TRUE, FALSE))[] [919] [920] Overfull \hbox (18.78088pt too wide) in paragraph at lines 2357--2357 []\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 2358--2358 [] \T1/pcr/m/n/10 ann = par("ann"), xaxt = par("xaxt"), frame.plot = T RUE, log = "",[] [921] Underfull \hbox (badness 1430) in paragraph at lines 2388--2390 []\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 [922] Overfull \hbox (78.78088pt too wide) in paragraph at lines 2469--2469 [] \T1/pcr/m/n/10 color.palette = function(n) hcl.colors(n, "YlO rRd", rev = TRUE),[] Underfull \hbox (badness 1009) in paragraph at lines 2481--2488 \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 [923] Underfull \hbox (badness 7273) in paragraph at lines 2563--2567 [][][]\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 [924] [925] [926] [927] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2811--2811 []\T1/pcr/m/n/9 ## maybe change the desired number of tick marks: par(lab = c (mx, my, 7))[] [928] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2848--2848 [] \T1/pcr/m/n/10 density = NULL, angle = 45, col = "lightgray", border = NULL,[] [929] [930] Underfull \hbox (badness 1226) in paragraph at lines 2975--2979 \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 [931] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3028--3028 []\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 3032--3032 []\T1/pcr/m/n/9 length(hh$breaks) ## typically 1 million -- though 1e6 was "a suggestion only"[] [932] Underfull \hbox (badness 10000) in paragraph at lines 3094--3097 [][][]\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 Overfull \hbox (15.18042pt too wide) in paragraph at lines 3145--3145 []\T1/pcr/m/n/9 ## The default fuzz in hist.default() "kills" this, with a "w rong" message:[] [933] [934] [935] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3309--3309 []\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 3314--3314 [] \T1/pcr/m/n/9 ans <- identify(x[!sel], y[!sel], labels = which(!sel) , n = 1, plot = plot, ...)[] [936] [937] Underfull \hbox (badness 10000) in paragraph at lines 3456--3461 []\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 3456--3461 [][][]\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 3456--3461 [][][]\T1/pcr/m/n/10 dev.capabilities[][][]("rasterImage")$rasterImage []\T1/pt m/m/n/10 is []\T1/pcr/m/n/10 "yes" []\T1/ptm/m/n/10 or it is Overfull \hbox (31.3804pt too wide) in paragraph at lines 3491--3491 []\T1/pcr/m/n/9 # Visualize as matrix. Need to transpose matrix and then flip it horizontally:[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3493--3493 []\T1/pcr/m/n/9 imageM <- function(m, grid = max(dim(m)) <= 25, asp = (nrow(m) -1)/(ncol(m)-1), ...) {[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 3496--3496 [] \T1/pcr/m/n/9 axis(side, at=at, labels=as.character(j+1L), col="gray ", col.axis=1, ...)[] [938] [939] [940] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3653--3653 []\T1/pcr/m/n/9 barplot(yhist$counts, axes = FALSE, xlim = c(0, top), space = 0, horiz = TRUE)[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3672--3672 [] \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 3676--3676 [] \T1/pcr/m/n/10 text.font = NULL, merge = do.lines && has.pch, trace = FALSE,[] [941] [942] [943] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3861--3861 [] \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 3862--3862 [] \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 3866--3866 [] \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 3876--3876 [] \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)",[] [944] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3907--3907 [] \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 3933--3933 []\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 3935--3935 []\T1/pcr/m/n/9 legend("topright", rownames(VADeaths), fill = gray.colors(nrow (VADeaths)))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3946--3946 []\T1/pcr/m/n/9 legend("bottomright", paste("sin(", 1:7, "pi * x)"), col = 1:7 , lty = 1:7,[] Underfull \vbox (badness 10000) has occurred while \output is active [945] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3961--3961 []\T1/pcr/m/n/9 legend(.4,1, "sin(c x)", pch = 21, pt.bg = "white", lty = 1, c ol = "blue")[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 3969--3969 []\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 3971--3971 []\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 3979--3979 [] \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 3989--3989 []\T1/pcr/m/n/9 legend("bottomleft", c("This legend", "has", "optimally sized" , "columns."),[] [946] Underfull \hbox (badness 10000) in paragraph at lines 4051--4055 [][][]\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% [947] [948] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4163--4163 [] \T1/pcr/m/n/10 log = "", ..., add = FALSE, verbose = getOption("verb ose"))[] [949] [950] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4317--4317 []\T1/pcr/m/n/9 nd <- length(dv <- seq(as.Date("1959-02-21"), by = "weeks", le ngth.out = 100))[] [951] Underfull \hbox (badness 3930) in paragraph at lines 4396--4398 []\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 [952] [953] [954] [955] [956] Underfull \hbox (badness 1286) in paragraph at lines 4707--4710 []\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 4715--4720 []\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 [957] [958] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4811--4811 []\T1/pcr/m/n/9 pairs(USJudgeRatings, lower.panel = panel.smooth, upper.panel = panel.cor,[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4816--4816 [] \T1/pcr/m/n/9 main = "Lengths and Widths in [log]", line.main=1.5, oma =c(2,2,3,2))[] [959] Underfull \hbox (badness 1264) in paragraph at lines 5007--5020 \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 , [960] [961] [962] [963] Underfull \hbox (badness 10000) in paragraph at lines 5273--5276 [964 ] Underfull \hbox (badness 10000) in paragraph at lines 5334--5336 [965 ] [966] [967] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5580--5580 []\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 5581--5581 [] \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 [968] [969] [970] [971] [972] [973] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5945--5945 []\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 5946--5946 [] \T1/pcr/m/n/9 init.angle = 315, col = c("deepskyblue", "yellow", "yellow 3"), border = FALSE)[] [974]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot }) has been already used, duplicate ignored \relax l.6005 \aliasA{plot}{plot.default}{plot} [975] [976] [977] [978] [979] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6337--6337 []\T1/pcr/m/n/9 plot(weight ~ group, data = PlantGrowth) # numeric v ector ~ factor[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6343--6343 []\T1/pcr/m/n/9 plot(PlantGrowth$group, axes = FALSE, main = "no axes") # ext remely silly[] [980] [981] Overfull \hbox (66.78088pt too wide) in paragraph at lines 6467--6467 [] \T1/pcr/m/n/10 main = paste("Histogram of", paste(x$xname, co llapse = "\n")),[] [982] [983] [984] [985] Underfull \hbox (badness 10000) in paragraph at lines 6772--6774 []\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see [986] [987] Underfull \hbox (badness 1028) in paragraph at lines 6866--6868 []\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 Overfull \hbox (31.57222pt too wide) in paragraph at lines 6909--6910 [][] [988 ] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7003--7003 []\T1/pcr/m/n/9 plot(x, sin(x), type = "o", pch = 21, bg = par("bg"), col = "b lue", cex = .6,[] [989] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7034--7034 [] \T1/pcr/m/n/9 plot(rx, ry, type = "n", axes = FALSE, xlab = "", ylab = "", main = main)[] Underfull \vbox (badness 10000) has occurred while \output is active [990] [991] Underfull \hbox (badness 10000) in paragraph at lines 7156--7158 []\T1/ptm/m/n/10 The code im-ple-ment-ing poly-gon shad-ing was do-nated by Kev in Buhr Overfull \hbox (15.18042pt too wide) in paragraph at lines 7183--7183 [] \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 7189--7189 []\T1/pcr/m/n/9 yy <- c(c(0, cumsum(stats::rnorm(n))), rev(c(0, cumsum(stats:: rnorm(n)))))[] [992] Underfull \hbox (badness 2600) in paragraph at lines 7246--7248 []\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 [993] [994] [995] [996] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7478--7478 []\T1/pcr/m/n/9 rect(100+i, 300+i, 150+i, 380+i, col = rainbow(11, start = 0.7 , end = 0.1))[] [997] [998] [999] [1000] [1001] [1002] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7865--7865 []\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 7869--7869 []\T1/pcr/m/n/9 ## label the 20 very lowest-density points,the "outliers" (wit h obs.number):[] [1003] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7881--7881 []\T1/pcr/m/n/9 pairs(y, panel = function(...) smoothScatter(..., nrpoints = 0 , add = TRUE),[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 7908--7908 [] \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 7917--7917 [] \T1/pcr/m/n/10 subset = NULL, weights = NULL, drop.unused.levels = FALSE)[] [1004] [1005] [1006] [1007] [1008] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8234--8234 []\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 8237--8237 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi us = FALSE,[] [1009] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8241--8241 [] \T1/pcr/m/n/9 draw.segments = TRUE, col.segments = 0, col.stars = 1:10 , key.loc = 0:1,[] [1010] [1011] Overfull \hbox (30.78088pt too wide) in paragraph at lines 8412--8412 []\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 8413--8413 []\T1/pcr/m/n/10 strheight(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...)[] [1012] [1013] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8517--8517 []\T1/pcr/m/n/10 sunflowerplot(formula, data = NULL, xlab = NULL, ylab = NULL, ...,[] [1014] Underfull \hbox (badness 1112) in paragraph at lines 8576--8580 []\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 [1015] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8636--8636 []\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 8651--8651 []\T1/pcr/m/n/9 sunflowerplot(rnorm(100), rnorm(100), number = rpois(n = 100, lambda = 2),[] [1016] [1017] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8788--8788 []\T1/pcr/m/n/9 text(x, y, apply(format(round(z3, digits = 2)), 1, paste, coll apse = ","),[] [1018] [1019] [1020] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8973--8973 [] \T1/pcr/m/n/9 "Le français, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est façile: Règles, Liberté, Egalité, Fraternité...")[] Underfull \hbox (badness 1215) in paragraph at lines 9001--9003 []\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", Underfull \hbox (badness 1584) in paragraph at lines 9035--9041 []\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 [1021]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9083 \HeaderA{units}{Graphical Units}{units} pdfTeX warning (ext4): destinatio n with the same identifier (name{Rfn.units.1}) has been already used, duplicate ignored \relax l.9083 \HeaderA{units}{Graphical Units}{units} [1022] Underfull \hbox (badness 1205) in paragraph at lines 9148--9150 []\T1/ptm/m/n/10 vectors con-tain-ing the co-or-di-nates of the ver-tices of th e poly-gon. See [1023] [1024] Overfull \hbox (25.98041pt too wide) in paragraph at lines 9267--9267 []\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)[] [1025]) (./grid-pkg.tex [1026] Chapter 6. [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] Underfull \hbox (badness 4859) in paragraph at lines 634--637 []\T1/ptm/m/n/10 Modification of the view-port (should all be valid ar-gu-ments to the [1037] [1038] [1039] [1040] [1041] [1042] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1028--1028 [] \T1/pcr/m/n/9 width=unit(1, "inches"), height=un it(1, "inches")))[] [1043] [1044] [1045] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1239--1239 [] \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 1240--1240 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="B"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1241--1241 [] \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 1242--1242 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="C"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1243--1243 [] \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 1244--1244 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="D")),[] [1046] [1047] [1048] [1049] Underfull \hbox (badness 3219) in paragraph at lines 1503--1506 []\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 [1050] [1051] [1052] [1053] [1054] [1055] [1056] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1891--1891 [] \T1/pcr/m/n/9 do.call("grid.curve", c(list(x1=.25, y1=.25, x2=.75, y2=.75) , list(...)))[] [1057] [1058] [1059] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2105--2105 []\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 2106--2106 []\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 2107--2107 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.75, y=.25, gp=gpar(fill="whi te"), name="r3")[] [1060] Underfull \hbox (badness 2961) in paragraph at lines 2142--2147 []\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 , [1061] Underfull \hbox (badness 4479) in paragraph at lines 2230--2233 []\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 [1062] [1063] [1064] Underfull \hbox (badness 2894) in paragraph at lines 2437--2444 []\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 [1065] [1066] [1067] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2593--2593 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = FALSE)[] [1068] Underfull \hbox (badness 1014) in paragraph at lines 2679--2684 []\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 [1069] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2725--2725 []\T1/pcr/m/n/10 grid.grabExpr(expr, warn = 2, wrap = wrap.grobs, wrap.grobs = FALSE,[] [1070] [1071] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2887--2887 [] \T1/pcr/m/n/9 children=gList(grob(name="child", vp ="vp1::vp2")),[] [1072] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2919--2919 [] \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp = NULL)[] [1073] [1074] Underfull \hbox (badness 10000) in paragraph at lines 3102--3104 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1075] Underfull \hbox (badness 1077) in paragraph at lines 3119--3138 []\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 3119--3138 []\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 3119--3138 []\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 , [1076] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3191--3191 [] \T1/pcr/m/n/9 mask <- as.mask(rectGrob(gp=gpar(col=NA, fill="grey50")), ty pe="luminance")[] [1077] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3307--3307 [] \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1 , "inches"),[] [1078] [1079] [1080] [1081] [1082] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3622--3622 [] \T1/pcr/m/n/9 children=vpList(viewpor t(name="vp2"))))[] [1083] [1084] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3718--3718 []\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 3755--3761 []\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 [1085] [1086] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3847--3847 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3854--3854 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] [1087] [1088] [1089] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4055--4055 [] \T1/pcr/m/n/9 "Nested rectangles, outer clockwise, inner ant i-clockwise")[] [1090] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4070--4070 [] \T1/pcr/m/n/9 "Overlapping rectangles, one clockwise, other anti-clockwise")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4091--4091 []\T1/pcr/m/n/9 # Not specifying pathId will treat all points as part of the s ame path, thus[] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] Underfull \hbox (badness 1067) in paragraph at lines 4840--4843 []\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 [1103] [1104] [1105] [1106] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5056--5056 [] \T1/pcr/m/n/9 width=unit(1, "inches"), height=un it(1, "inches")))[] [1107] [1108] Underfull \hbox (badness 7256) in paragraph at lines 5191--5193 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1109] Overfull \hbox (69.18036pt too wide) in paragraph at lines 5258--5258 []\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),[] [1110] [1111] [1112] [1113] [1114] [1115] Underfull \hbox (badness 2726) in paragraph at lines 5645--5649 []\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 5645--5649 \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 [1116] Underfull \hbox (badness 2080) in paragraph at lines 5727--5732 []\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 [1117] [1118] [1119] Underfull \hbox (badness 10000) in paragraph at lines 5907--5909 []\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 [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7002--7002 []\T1/pcr/m/n/9 unitType(min(unit(1, "in"), unit(1, "npc") + unit(1, "mm")), r ecurse=TRUE)[] [1137] [1138] Overfull \hbox (54.78088pt too wide) in paragraph at lines 7122--7122 []\T1/pcr/m/n/10 viewportTransform(group, shear=groupShear(), flip=groupFlip() , device=TRUE) [1139] Underfull \hbox (badness 1867) in paragraph at lines 7224--7226 []\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 [1140] Underfull \hbox (badness 10000) in paragraph at lines 7261--7267 [][][]\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 , [1141] [1142] [1143] Underfull \vbox (badness 10000) has occurred while \output is active [1144] [1145] [1146] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7597--7597 []\T1/pcr/m/n/9 invisible(lapply(trace, function(t) grid.lines(t$x, t$y, gp=gp ar(col="red"))))[] [1147]) (./methods-pkg.tex [1148] Chapter 7. [1149] [1150] Underfull \hbox (badness 1688) in paragraph at lines 166--171 []\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 [1151] [1152] [1153] Underfull \hbox (badness 1348) in paragraph at lines 392--395 [][][]\T1/pcr/m/n/10 GroupGenericFunctions[][][] []\T1/ptm/m/n/10 for other in- for-ma-tion about group generic func-tions; [][]Meth- [1154] [1155] Overfull \hbox (15.18042pt too wide) in paragraph at lines 558--558 []\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 568--568 []\T1/pcr/m/n/9 ## For arithmetic and one rnum with anything, callNextMethod w ith no arguments[] [1156] Overfull \hbox (4.38043pt too wide) in paragraph at lines 619--619 []\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 [1157] Overfull \hbox (25.98041pt too wide) in paragraph at lines 637--637 []\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 640--640 []\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 657--657 []\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 672--672 []\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 [1158] [1159] [1160] [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1794--1794 []\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 1796--1796 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i, TRUE), c(1:10, 1+1i, TRUE)) ) # the default[] [1173] [1174] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\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 [1175] [1176] [1177] Underfull \hbox (badness 1478) in paragraph at lines 2213--2218 []\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 = [1178] [1179] Underfull \hbox (badness 10000) in paragraph at lines 2327--2331 []\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 [1180] [1181] [1182] Underfull \hbox (badness 3792) in paragraph at lines 2573--2576 []\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 Underfull \hbox (badness 1194) in paragraph at lines 2604--2608 []\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 [1183] Overfull \hbox (24.78088pt too wide) in paragraph at lines 2660--2660 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin g(where))[] [1184] [1185] [1186] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2879--2879 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers ions visible:[] [1187] [1188] [1189] [1190] [1191] [1192] [1193] Underfull \hbox (badness 10000) in paragraph at lines 3402--3407 []\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 3402--3407 []\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 [1194] [1195] Underfull \hbox (badness 10000) in paragraph at lines 3530--3534 []\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 [1196] Overfull \hbox (14.78088pt too wide) in paragraph at lines 3641--3650 [] [1197] [1198] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/pcr/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = Underfull \hbox (badness 10000) in paragraph at lines 3808--3809 []\T1/pcr/m/n/10 setMethod("plot", c("Pos", "missing"), function(x, y, ...) { [1199] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/pcr/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , Underfull \hbox (badness 6157) in paragraph at lines 3907--3911 []\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 [1200] [1201] [1202] [1203] [1204] [1205] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4312--4312 []\T1/pcr/m/n/10 makeClassRepresentation(name, slots=list(), superClasses=char acter(), Overfull \hbox (0.78088pt too wide) in paragraph at lines 4313--4313 [] \T1/pcr/m/n/10 prototype=NULL, package, validity, ac cess,[] [1206] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4370--4370 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w here) [1207] [1208] [1209] Underfull \hbox (badness 2126) in paragraph at lines 4578--4586 []\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 , [1210] [1211] [1212] Underfull \hbox (badness 10000) in paragraph at lines 4815--4824 []\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 [1213] [1214] [1215] [1216] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5203--5203 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate inheritance[] [1217] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5231--5231 []\T1/pcr/m/n/9 stopifnot(identical(abs(y), abs(x))) # (version 2.9.0 or earli er fails here)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5245--5245 []\T1/pcr/m/n/9 ## The S3 method for classA and the closest inherited S3 metho d for classB[] Underfull \vbox (badness 10000) has occurred while \output is active [1218] [1219] Underfull \hbox (badness 10000) in paragraph at lines 5363--5364 []\T1/pcr/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...) [1220] [1221] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1222] [1223] [1224] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\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 [1225] [1226] [1227] [1228] [1229] [1230] Underfull \hbox (badness 10000) in paragraph at lines 6218--6234 []\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 [1231] [1232] Underfull \hbox (badness 1248) in paragraph at lines 6351--6355 []\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 6351--6355 \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 [1233] Underfull \hbox (badness 4647) in paragraph at lines 6506--6508 []\T1/ptm/m/n/10 This method is equiv-a-lent to call-ing the gen-er-a-tor func- tion re-turned by [1234] [1235] Underfull \hbox (badness 2875) in paragraph at lines 6655--6664 []\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 6655--6664 [][][]\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 [1236] Underfull \vbox (badness 10000) has occurred while \output is active [1237] [1238] [1239]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1240] Overfull \hbox (66.78088pt too wide) in paragraph at lines 7017--7017 []\T1/pcr/m/n/10 ## Create a new object from the class or use the replacement version of as().[] [1241] [1242] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7208--7208 []\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 7212--7212 []\T1/pcr/m/n/9 myReg <- setClass("myReg", slots = c(title = "character"), con tains = "mlm")[] [1243]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Com plex}) has been already used, duplicate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\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 [1244] Underfull \hbox (badness 6708) in paragraph at lines 7317--7329 []\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 7317--7329 []\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 7317--7329 []\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 , [1245] [1246] Underfull \hbox (badness 1694) in paragraph at lines 7480--7482 []\T1/ptm/m/n/10 name of the class or (more ef-fi-ciently) the class def-i-ni-t ion ob-ject (see Underfull \hbox (badness 10000) in paragraph at lines 7504--7507 []\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 [1247] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7525--7525 []\T1/pcr/m/n/9 selectSuperClasses("C", dropVirtual=TRUE, directOnly=FALSE)# d itto w/o "Root"[] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8630--8630 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact er(), [1261] Overfull \hbox (6.78088pt too wide) in paragraph at lines 8705--8705 [] \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class Def =,[] [1262] [1263] [1264] [1265] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8967--8967 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col umn matrices[] [1266] [1267] [1268] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9175--9175 [] \T1/pcr/m/n/9 setLoadAction(function(ns) assign("myCount", 0, envir = ns), "setCount")[] [1269] [1270] [1271] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9437--9437 []\T1/pcr/m/n/9 ## Using a short form for the signature, which matches like fo rmal arguments[] [1272] [1273] [1274] [1275] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9745--9745 []\T1/pcr/m/n/9 ## Define a new generic function to compute the residual degre es of freedom[] [1276] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9855--9855 []\T1/pcr/m/n/9 ## Not run: [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1 0] [,11] [,12][] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9866--9866 []\T1/pcr/m/n/9 ## Not run: [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1 0] [,11] [,12][] [1277] [1278] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] Underfull \hbox (badness 10000) in paragraph at lines 10564--10566 []\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 10572--10576 []\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 10572--10576 []\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 [1287] [1288] [1289]) (./parallel-pkg.tex [1290] 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 [1291] Underfull \hbox (badness 4242) in paragraph at lines 97--99 []\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 [1292] [1293] Underfull \hbox (badness 1024) in paragraph at lines 214--217 []\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 [1294] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1295] [1296] Underfull \hbox (badness 10000) in paragraph at lines 437--439 []\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 [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 1917) in paragraph at lines 771--780 []\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 771--780 []\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 [1302] Overfull \hbox (60.78088pt too wide) in paragraph at lines 864--864 [] \T1/pcr/m/n/10 mc.cleanup = TRUE, mc.allow.recursive = TRUE, affini ty.list = NULL)[] [1303] [1304] [1305] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1055--1055 []\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 1059--1059 []\T1/pcr/m/n/9 # To optimize the overall execution time elements of X are sch eduled to suitable CPUs[] [1306] [1307] Underfull \hbox (badness 5388) in paragraph at lines 1174--1179 []\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 Underfull \hbox (badness 10000) in paragraph at lines 1198--1206 []\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 [1308] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1235--1235 []\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)[] [1309] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1351--1351 [] \T1/pcr/m/n/9 as.integer(runif(N, 1, 12)), as.integer(runif (N, 1, 28)))[] [1310] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1365--1365 []\T1/pcr/m/n/9 system.time(c <- unlist(mclapply(dates, as.POSIXct, format = "%Y-%m-%d")))[] Underfull \hbox (badness 1577) in paragraph at lines 1394--1397 []\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 [1311] Underfull \hbox (badness 3375) in paragraph at lines 1441--1443 []\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 [1312] [1313]) (./splines-pkg.tex [1314] 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 [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] Overfull \hbox (4.38043pt too wide) in paragraph at lines 499--499 []\T1/pcr/m/n/9 ispl <- polySpline(interpSpline( weight ~ height, women, bSpl ine = TRUE))[] [1323] Underfull \hbox (badness 1043) in paragraph at lines 600--602 []\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 [1324] [1325] Overfull \hbox (25.98041pt too wide) in paragraph at lines 715--715 []\T1/pcr/m/n/9 Matrix::drop0(zapsmall(6*splineDesign(knots = 1:40, x = 4:37, sparse = TRUE)))[] [1326] [1327] [1328]) (./stats-pkg.tex Chapter 10. [1329] 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[] [1330] [1331] [1332] [1333] [1334] 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[] [1335] 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) [1336] [1337] [1338] [1339] [1340] [1341] Underfull \hbox (badness 1024) in paragraph at lines 887--889 []\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 [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1626--1626 [] \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 1629--1629 [] \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm = TRUE)[] [1353] [1354] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1776--1776 [] \T1/pcr/m/n/9 approx(xn, yn, xout=xout, method=M, rule=R, n a.rm=na.)$y),[] [1355] Overfull \hbox (47.58038pt too wide) in paragraph at lines 1788--1788 []\T1/pcr/m/n/9 (amy <- approx(x, y, xout = x)$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 :[ ] [1356] [1357] [1358] [1359] [1360] [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2806--2806 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(), ma = numeric(), lag.max = r, pacf = F ALSE) [1370] [1371] [1372] [1373] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3054--3054 []\T1/pcr/m/n/9 lines(ave(breaks, wool, tension, FUN = median), type = "s", co l = "green")[] [1374] [1375] [1376] Underfull \hbox (badness 10000) in paragraph at lines 3265--3267 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Bartlett test of homo geneity of [1377] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3314--3314 []\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 3315--3315 []\T1/pcr/m/n/10 qbeta(p, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] [1378] [1379] [1380] [1381] Package amsmath Warning: Foreign command \atopwithdelims; (amsmath) \frac or \genfrac should be used instead (amsmath) on input line 3644. [1382] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3710--3710 []\T1/pcr/m/n/9 plot (k, dbinom(k, n, pi/10, log = TRUE), type = "l", ylab = " log density",[] [1383] [1384] [1385] [1386] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3989--3989 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit df = 0) [1387] [1388] [1389] [1390] [1391] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4278--4278 []\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 4279--4279 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1392] [1393] [1394] [1395] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4520--4520 []\T1/pcr/m/n/9 chisq.test(x, p = p) # maybe doubtful , but is ok![] [1396] [1397] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4695--4695 [] \T1/pcr/m/n/9 plot(pp, sort(pchisq(rr <- rchisq(n, df = df, ncp = L), df = df, ncp = L)),[] [1398] [1399] Underfull \hbox (badness 3989) in paragraph at lines 4789--4796 []\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 = [1400] [1401] [1402] [1403] [1404] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5178--5178 []\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 5180--5180 []\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))[] [1405] [1406] [1407] [1408] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5402--5402 []\T1/pcr/m/n/9 ## using sparse contrasts: % useful, once model.matrix() works with these :[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5420--5420 []\T1/pcr/m/n/10 convolve(x, y, conj = TRUE, type = c("circular", "open", "fil ter")) [1409] [1410] [1411] Underfull \hbox (badness 1436) in paragraph at lines 5630--5635 []\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 5630--5635 \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 5630--5635 \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 , [1412] [1413] Underfull \vbox (badness 10000) has occurred while \output is active [1414] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5833--5833 [] \T1/pcr/m/n/10 exact = NULL, conf.level = 0.95, continuity = FALSE, ...)[] [1415] [1416] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6000--6000 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center = TRUE, [1417] [1418] [1419] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6185--6185 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter = NULL) [1420] [1421] Overfull \hbox (84.78088pt too wide) in paragraph at lines 6293--6293 []\T1/pcr/m/n/10 reformulate(termlabels, response = NULL, intercept = TRUE, en v = parent.frame())[] [1422] [1423] [1424] [1425] Underfull \hbox (badness 5954) in paragraph at lines 6556--6558 []\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn , see [1426] Underfull \hbox (badness 2503) in paragraph at lines 6638--6641 []\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 6642--6644 []\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 6645--6650 \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, [1427] Underfull \hbox (badness 7238) in paragraph at lines 6681--6684 [][][]\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 6693--6693 []\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 6716--6716 []\T1/pcr/m/n/9 plot(dend2$lower[[3]], nodePar = list(col = 4), horiz = TRUE, type = "tr")[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6731--6731 []\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):[] [1428] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6746--6746 []\T1/pcr/m/n/9 plot(d3, nodePar= nP, edgePar = list(col = "gray", lwd = 2), h oriz = TRUE)[] [1429] [1430] [1431] Underfull \vbox (badness 10000) has occurred while \output is active [1432] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7014--7014 [] \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker n = TRUE))))[] [1433] [1434] Underfull \vbox (badness 10000) has occurred while \output is active [1435] [1436] [1437] [1438] Underfull \hbox (badness 10000) in paragraph at lines 7414--7418 []\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 [1439] Underfull \hbox (badness 6493) in paragraph at lines 7517--7520 []\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 [1440] [1441] Underfull \hbox (badness 10000) in paragraph at lines 7654--7657 []\T1/ptm/m/n/10 The CRAN task view on dis-tri-bu-tions, [][]$\T1/pcr/m/n/10 ht tps : / / CRAN . R-[]project . org / view = [1442] [1443] [1444] [1445] [1446] [1447] Underfull \hbox (badness 10000) in paragraph at lines 8066--8071 []\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 , ..., [1448] [1449] [1450] [1451] [1452] [1453] Underfull \hbox (badness 1210) in paragraph at lines 8421--8423 []\T1/ptm/m/n/10 Components of []\T1/pcr/m/n/10 control []\T1/ptm/m/n/10 can al so be sup-plied as named ar-gu-ments to [1454] [1455] [1456] [1457] [1458] [1459] Overfull \hbox (15.18042pt too wide) in paragraph at lines 8887--8887 []\T1/pcr/m/n/9 glm.qD93 <- glm(counts ~ outcome + treatment, d.AD, family = q uasipoisson())[] [1460] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8932--8932 []\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 8935--8935 []\T1/pcr/m/n/9 glm(y ~ x, family = quasi(variance = "mu(1-mu)", link = "logit "), start = c(0,1))[] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9515--9515 [] \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 9516--9516 [] \T1/pcr/m/n/9 satisfaction = c("VeryD", "LittleD", "Mod erateS", "VeryS")))[] [1469] [1470] [1471] Underfull \hbox (badness 7291) in paragraph at lines 9695--9697 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Fligner-Killeen test of homogeneity of [1472] [1473] [1474] [1475] [1476] [1477] [1478] Underfull \hbox (badness 6944) in paragraph at lines 10187--10193 [][][]\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 ); [1479] [1480] [1481] Underfull \hbox (badness 3758) in paragraph at lines 10401--10404 []\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 [1482] [1483] [1484] [1485] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10645--10645 [] \T1/pcr/m/n/10 x = FALSE, y = TRUE, singular.ok = TRUE, contrasts = NULL , ...)[] Underfull \hbox (badness 4518) in paragraph at lines 10671--10676 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1486] Underfull \hbox (badness 4132) in paragraph at lines 10710--10714 []\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 10764--10770 []\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- [1487] Underfull \hbox (badness 10000) in paragraph at lines 10815--10818 []\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 [1488] [1489] [1490] Underfull \hbox (badness 2142) in paragraph at lines 11032--11035 []\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 ^^@ [1491] Underfull \hbox (badness 1708) in paragraph at lines 11113--11117 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1492] Underfull \hbox (badness 10000) in paragraph at lines 11155--11161 [][][]\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, Underfull \hbox (badness 1418) in paragraph at lines 11193--11198 []\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 (= [1493] [1494] Underfull \hbox (badness 2635) in paragraph at lines 11326--11329 \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 [1495] [1496] [1497] Underfull \hbox (badness 1694) in paragraph at lines 11509--11512 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1498] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11607--11607 []\T1/pcr/m/n/9 heatmap(Ca, Rowv = FALSE, symm = TRUE, RowSideColors = cc, Col SideColors = cc,[] [1499] Overfull \hbox (0.78088pt too wide) in paragraph at lines 11640--11640 [] \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 11653--11657 []\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 [1500] [1501] [1502] [1503] [1504] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11975--11975 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]), col = 2:4) , DEV.FUN = nD)[] [1505]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat }) has been already used, duplicate ignored \relax l.11990 \aliasA{hat}{influence.measures}{hat} Overfull \hbox (0.78088pt too wide) in paragraph at lines 12050--12050 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA LSE),[] [1506] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12062--12062 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE), ...)[] Underfull \hbox (badness 1062) in paragraph at lines 12115--12120 []\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 12132--12134 []\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 [1507] [1508] [1509] [1510] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12387--12387 [] \T1/pcr/m/n/10 type = c("l", "p", "b", "o", "c"), legend = TRUE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12388--12388 [] \T1/pcr/m/n/10 trace.label = deparse1(substitute(trace.fact or)),[] [1511] [1512] [1513] [1514] [1515] [1516] Underfull \hbox (badness 10000) in paragraph at lines 12734--12736 []\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 = Underfull \hbox (badness 4739) in paragraph at lines 12757--12759 []\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 [1517] [1518] [1519] [1520] [1521] Underfull \hbox (badness 3417) in paragraph at lines 13064--13066 []\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 13070--13074 []\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 13070--13074 \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 [1522] [1523] [1524] [1525] [1526] [1527] Underfull \hbox (badness 1496) in paragraph at lines 13493--13499 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1528] [1529] [1530] [1531] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13742--13742 []\T1/pcr/m/n/9 lag.plot(sqrt(sunspots), set.lags = c(1:4, 9:12), pch = ".", c ol = "gold")[] [1532] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13843--13843 []\T1/pcr/m/n/9 dimnames(cAS) <- list(paste("it =", format(1:10)), c("intercep t", "slope"))[] [1533] Underfull \hbox (badness 4518) in paragraph at lines 13891--13896 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1534] [1535] [1536] Underfull \hbox (badness 10000) in paragraph at lines 14092--14096 []\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 , [1537] [1538] [1539] [1540] [1541] Underfull \hbox (badness 1163) in paragraph at lines 14431--14439 \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 , [1542] [1543] Underfull \hbox (badness 4518) in paragraph at lines 14551--14556 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1544] [1545] Overfull \hbox (12.78088pt too wide) in paragraph at lines 14739--14739 []\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 14740--14740 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1546] [1547] [1548] [1549] [1550] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15083--15083 []\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 15084--15084 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] [1551] [1552] Overfull \hbox (18.78088pt too wide) in paragraph at lines 15177--15177 []\T1/pcr/m/n/10 lowess(x, y = NULL, f = 2/3, iter = 3, delta = 0.01 * diff(ra nge(x))) [1553] [1554] [1555] [1556] [1557] [1558] Underfull \hbox (badness 2726) in paragraph at lines 15586--15589 []\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 , [1559] Overfull \hbox (4.38043pt too wide) in paragraph at lines 15680--15680 []\T1/pcr/m/n/9 stopifnot(all.equal(pfm, pf2)) ## was off (rel.diff. 0.0766) i n R <= 3.5.0[] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] Overfull \hbox (31.3804pt too wide) in paragraph at lines 16309--16309 []\T1/pcr/m/n/9 a <- model.frame(cbind(ncases,ncontrols) ~ agegp + tobgp + alc gp, data = esoph) [1570] [1571] Underfull \hbox (badness 1490) in paragraph at lines 16456--16461 \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 [1572] Underfull \hbox (badness 1648) in paragraph at lines 16524--16526 []\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, [1573] Overfull \hbox (36.7804pt too wide) in paragraph at lines 16609--16609 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts.arg = list(a = "contr.sum" , b = contr.poly))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 16610--16610 []\T1/pcr/m/n/9 m.orth <- model.matrix(~a+b, dd, contrasts.arg = list(a = "con tr.helmert"))[] [1574] [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] Overfull \hbox (9.78043pt too wide) in paragraph at lines 17167--17167 []\T1/pcr/m/n/9 stopifnot(all(na.omit(1:3) == 1:3)) # does not affect objects with no NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s[] [1583] [1584] [1585] Overfull \hbox (25.98041pt too wide) in paragraph at lines 17399--17399 []\T1/pcr/m/n/9 persp(x, size, dnb <- outer(x, size, function(x,s) dnbinom(x, s, prob = 0.4)),[] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] Underfull \vbox (badness 10000) has occurred while \output is active [1596] Overfull \hbox (42.18039pt too wide) in paragraph at lines 18121--18121 []\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:[] Underfull \vbox (badness 10000) has occurred while \output is active [1597] Overfull \hbox (74.58035pt too wide) in paragraph at lines 18139--18139 []\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 18140--18140 []\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 18144--18144 []\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 18145--18145 []\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 18148--18148 [] \T1/pcr/m/n/9 (grepl("^aarch64.*linux", R.version$platform) && grepl ("^NixOS", osVersion)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 18180--18180 [] \T1/pcr/m/n/9 start = list(a = rep(b[2], 21), b = rep(b[3], 21 ), th = b[1]))[] [1598] [1599] [1600] Overfull \hbox (9.78043pt too wide) in paragraph at lines 18356--18356 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi ty), DNase.2)[] [1601] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18403--18403 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18450--18450 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1602] [1603] [1604] [1605] Overfull \hbox (102.78088pt too wide) in paragraph at lines 18663--18663 [] \T1/pcr/m/n/10 eps = .Machine$double.eps ^ (1/if(central) 3 els e 2), central = FALSE)[] [1606] [1607] [1608] [1609] [1610] Underfull \hbox (badness 1248) in paragraph at lines 18978--18981 []\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 18991--18995 []\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 18999--19003 \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 [1611] Underfull \hbox (badness 2042) in paragraph at lines 19057--19059 []\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 [1612] Overfull \hbox (15.18042pt too wide) in paragraph at lines 19163--19163 [] \T1/pcr/m/n/9 lower = rep(2, 25), upper = rep(4, 25)) # par[24] is *no t* at boundary[] [1613] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19206--19206 [] \T1/pcr/m/n/9 main = "initial solution of traveling salesman problem", axes = FALSE)[] Overfull \hbox (123.1803pt too wide) in paragraph at lines 19224--19224 []\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 19227--19227 []\T1/pcr/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 19247--19247 []\T1/pcr/m/n/10 optimize(f, interval, ..., lower = min(interval), upper = max (interval), [1614] Overfull \hbox (36.78088pt too wide) in paragraph at lines 19250--19250 []\T1/pcr/m/n/10 optimise(f, interval, ..., lower = min(interval), upper = max (interval),[] Underfull \hbox (badness 2564) in paragraph at lines 19285--19296 []\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 19285--19296 \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 [1615] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19348--19348 []\T1/pcr/m/n/9 f <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 1)), 10), 10)[] [1616] [1617] [1618] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19575--19575 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 1, lty = 1:6,[] [1619] [1620] Underfull \hbox (badness 1337) in paragraph at lines 19686--19689 []\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 [1621] [1622] [1623] [1624] [1625] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20005--20005 [] \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 1.5),[] [1626] [1627] Overfull \hbox (24.78088pt too wide) in paragraph at lines 20093--20093 [] \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 (12.78088pt too wide) in paragraph at lines 20095--20095 [] \T1/pcr/m/n/10 panel.smooth(x, y, iter=iter.smooth, ...) else points,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 20097--20097 [] \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact ive(),[] [1628] Underfull \hbox (badness 10000) in paragraph at lines 20157--20163 \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 20157--20163 \T1/pcr/m/n/10 col = cook.col, text.col = cook.col, bty = "n", x.intersp Underfull \hbox (badness 10000) in paragraph at lines 20165--20171 []\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 20176--20179 []\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 <- [1629] [1630] [1631] [1632] [1633] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20485--20485 [] \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3, ...)[] Underfull \hbox (badness 1194) in paragraph at lines 20495--20498 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1634] Underfull \hbox (badness 1107) in paragraph at lines 20553--20555 []\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 [1635] Overfull \hbox (20.58041pt too wide) in paragraph at lines 20608--20608 []\T1/pcr/m/n/9 plot(sfun.2);plot(sfun.2, xval = tt, add = TRUE, col = "orange ") # all colors[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 20615--20615 []\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)[] [1636] [1637] Overfull \hbox (20.58041pt too wide) in paragraph at lines 20709--20709 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma r..., oma...)")[] [1638] [1639] Overfull \hbox (4.38043pt too wide) in paragraph at lines 20838--20838 [] \T1/pcr/m/n/9 ppois(10*(15:25), lambda = 100, lower.tail = FALSE) # no cancellation[] [1640] Underfull \hbox (badness 7740) in paragraph at lines 20901--20903 []\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 Overfull \hbox (6.78088pt too wide) in paragraph at lines 20949--20949 []\T1/pcr/m/n/10 poly(x, ..., degree = 1, coefs = NULL, raw = FALSE, simple = FALSE) [1641] Underfull \hbox (badness 10000) in paragraph at lines 21005--21007 []\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 [1642] Overfull \hbox (4.38043pt too wide) in paragraph at lines 21042--21042 [] \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 21047--21047 []\T1/pcr/m/n/9 ## poly(, df) --- used to fail till July 14 (vive la F rance!), 2017:[] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] Overfull \hbox (58.38037pt too wide) in paragraph at lines 21902--21902 [] \T1/pcr/m/n/9 all.equal(pz3$sdev, pZ$sdev, tolerance = 1e-15)) # e xactly equal typically[] [1656] Underfull \hbox (badness 6859) in paragraph at lines 21969--21976 [][][]\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 21980--21986 []\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 , [1657] [1658] [1659] [1660] [1661] Overfull \hbox (54.78088pt too wide) in paragraph at lines 22268--22268 [] \T1/pcr/m/n/10 rankdeficient = c("warnif", "simple", "non-estim", "N A", "NAwarn"),[] Underfull \hbox (badness 10000) in paragraph at lines 22294--22297 []\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 22294--22297 \T1/ptm/m/n/10 case of a rank de-fi-cient model, i.e., when []\T1/pcr/m/n/10 ob ject$rank < [1662] Underfull \hbox (badness 5832) in paragraph at lines 22299--22304 \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 22299--22304 \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 22299--22304 \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 [1663] [1664] [1665] [1666] [1667] [1668] [1669] Overfull \hbox (48.78088pt too wide) in paragraph at lines 22767--22767 [] \T1/pcr/m/n/10 subset = rep_len(TRUE, nrow(as.matrix(x))), fix_sign = TRUE, ...)[] [1670] [1671] [1672] [1673] Overfull \hbox (0.78088pt too wide) in paragraph at lines 23051--23051 [] \T1/pcr/m/n/10 has.Pvalue = nc >= 4L && length(cn <- colnames(x )) &&[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 23052--23052 [] \T1/pcr/m/n/10 substr(cn[nc], 1L, 3L) %in% c("Pr(" , "p-v"),[] [1674] [1675] [1676] [1677] [1678] Underfull \hbox (badness 1337) in paragraph at lines 23378--23384 []\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 [1679] [1680] [1681] [1682] [1683] Overfull \hbox (15.18042pt too wide) in paragraph at lines 23690--23690 []\T1/pcr/m/n/9 with(d, qqplot(Female, Male, pch = 19, xlim = c(-31, 31), ylim = c(-31, 31),[] [1684] [1685] [1686] [1687] Underfull \hbox (badness 10000) in paragraph at lines 24002--24004 []\T1/ptm/m/n/10 Wicklin, R. (2017) Sam-ple quan-tiles: A com-par-i-son of 9 de f-i-ni-tions; Underfull \hbox (badness 10000) in paragraph at lines 24002--24004 \T1/ptm/m/n/10 SAS Blog. [][]$\T1/pcr/m/n/10 https : / / blogs . sas . com / co ntent / iml / 2017 / 05 / 24 / [1688] Underfull \hbox (badness 10000) in paragraph at lines 24009--24010 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ [1689] Overfull \hbox (48.78088pt too wide) in paragraph at lines 24120--24120 [] \T1/pcr/m/n/10 method = c("non.compact", "row.compact", "col.compact" , "compact"),[] [1690] Underfull \hbox (badness 1028) in paragraph at lines 24178--24181 []\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 [1691] [1692] Underfull \hbox (badness 10000) in paragraph at lines 24293--24296 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by [1693] Underfull \hbox (badness 7099) in paragraph at lines 24348--24350 []\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 = [1694] Underfull \hbox (badness 7099) in paragraph at lines 24412--24414 []\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 24447--24447 []\T1/pcr/m/n/9 bymedianR <- with(InsectSprays, reorder(spray, count, median, decreasing=TRUE))[] [1695] [1696] Overfull \hbox (9.78043pt too wide) in paragraph at lines 24523--24523 []\T1/pcr/m/n/9 plot(reorder(dd, 10:1, agglo.FUN = mean), main = "reorder(dd, 10:1, mean)")[] [1697] [1698] Overfull \hbox (0.78088pt too wide) in paragraph at lines 24640--24640 []\T1/pcr/m/n/10 # varying = ___, # list / matrix / vector (use with care)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 24641--24641 []\T1/pcr/m/n/10 # v.names = ___, # vector of variable names in long format[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 24642--24642 []\T1/pcr/m/n/10 # timevar, times, # name / values of constructed time variable[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 24643--24643 []\T1/pcr/m/n/10 # idvar, ids) # name / values of constructed id v ariable[] [1699] [1700] Underfull \hbox (badness 10000) in paragraph at lines 24803--24808 [][][]\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 24803--24808 [][][]\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 24814--24814 []\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 24815--24815 []\T1/pcr/m/n/9 reshape(Indometh, direction = "wide", idvar = "Subject", timev ar = "time")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 24834--24834 []\T1/pcr/m/n/9 reshape(df, timevar = "visit", idvar = "id", direction = "wide ", v.names = "x")[] [1701] [1702] Overfull \hbox (60.78088pt too wide) in paragraph at lines 24938--24938 [] \T1/pcr/m/n/10 na.action = c("+Big_alternate", "-Big_alternate", "na. omit", "fail"),[] Underfull \hbox (badness 1033) in paragraph at lines 24981--24987 \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 [1703] Underfull \hbox (badness 10000) in paragraph at lines 25002--25005 []\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] = [1704] Overfull \hbox (9.78043pt too wide) in paragraph at lines 25084--25084 []\T1/pcr/m/n/9 plot(myNHT, type = "b", ylim = c(48, 60), main = "Running Medi ans Example")[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 25113--25113 []\T1/pcr/m/n/9 ## An example with initial NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s - used to fail badly (notably for "Turlach"):[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 25125--25125 []\T1/pcr/m/n/9 matplot(y = cbind(x15, rT15), type = "b", ylim = c(1,9), pch=1 :5, xlab = NA,[] [1705] [1706] [1707] [1708] [1709] [1710] Underfull \vbox (badness 10000) has occurred while \output is active [1711] [1712] Underfull \hbox (badness 6268) in paragraph at lines 25584--25589 [][][]\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 , [1713] [1714] [1715] Underfull \hbox (badness 1867) in paragraph at lines 25794--25796 []\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 25810--25814 []\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 25810--25814 \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 [1716] Overfull \hbox (20.58041pt too wide) in paragraph at lines 25852--25852 []\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 25859--25859 []\T1/pcr/m/n/9 stopifnot(all.equal(sigma(fm.DN1), summary(fm.DN1)$sigma, tole rance=1e-15))[] [1717] [1718] [1719] Underfull \hbox (badness 2495) in paragraph at lines 26042--26051 []\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 . [1720] [1721] Underfull \hbox (badness 2197) in paragraph at lines 26184--26187 []\T1/pcr/m/n/10 psmirnov []\T1/ptm/m/n/10 gives the dis-tri-bu-tion func-tion, []\T1/pcr/m/n/10 qsmirnov []\T1/ptm/m/n/10 gives the quan-tile func-tion, and Overfull \hbox (24.78088pt too wide) in paragraph at lines 26204--26204 [] \T1/pcr/m/n/10 twiceit = FALSE, endrule = c("Tukey", "copy"), do.ends = FALSE)[] Underfull \hbox (badness 1412) in paragraph at lines 26211--26213 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui red; de-faults to [1722] Overfull \hbox (25.98041pt too wide) in paragraph at lines 26298--26298 []\T1/pcr/m/n/9 matlines(cbind(smooth(x, "3R"), smooth(x, "S"), smooth(x, "3RS S"), smooth(x)))[] [1723] Overfull \hbox (84.78088pt too wide) in paragraph at lines 26323--26323 []\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 26326--26326 [] \T1/pcr/m/n/10 control.spar = list(), tol = 1e-6 * IQR(x), kee p.stuff = FALSE)[] [1724] [1725] [1726] Overfull \hbox (6.78088pt too wide) in paragraph at lines 26561--26561 [] \T1/pcr/m/n/10 nx <- length(x) - sum(duplicated( round((x - mean(x)) / t ol) ))[] Underfull \hbox (badness 2547) in paragraph at lines 26565--26571 []\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 [1727] Overfull \hbox (4.38043pt too wide) in paragraph at lines 26612--26612 []\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 26633--26633 []\T1/pcr/m/n/9 with(cars.spl$fit, min + range * knot[-c(1:3, nk+1 +1:3)]) # = = unique(cars$speed)[] Underfull \vbox (badness 10000) has occurred while \output is active [1728] [1729] [1730] Overfull \hbox (0.78088pt too wide) in paragraph at lines 26825--26825 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na. fail, [1731] [1732] [1733] [1734] [1735] [1736] Overfull \hbox (36.78088pt too wide) in paragraph at lines 27205--27205 [] \T1/pcr/m/n/10 method = c("fmm", "periodic", "natural", "monoH.FC" , "hyman"),[] [1737] [1738] Overfull \hbox (69.18036pt too wide) in paragraph at lines 27386--27386 []\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 27392--27392 []\T1/pcr/m/n/9 plot(x, y, main = "spline(x,y, ties=list(\"ordered\", mean)) for when x has ties")[] Underfull \vbox (badness 10000) has occurred while \output is active [1739] Overfull \hbox (31.3804pt too wide) in paragraph at lines 27401--27401 []\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 27402--27402 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "hyman") (x), add = TRUE, c ol = 4, n = 1001)[] [1740] Underfull \hbox (badness 2922) in paragraph at lines 27471--27476 []\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 (9.78043pt too wide) in paragraph at lines 27508--27508 [] \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 27511--27511 [] \T1/pcr/m/n/9 {f[phi](x) == phi[1] + (phi[2]-phi[1])*~e^ {-e^{phi[3]}*~x}}))[] [1741] Overfull \hbox (20.58041pt too wide) in paragraph at lines 27520--27520 [] \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 27521--27521 [] \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 27525--27525 [] \T1/pcr/m/n/9 axis(2, at = c(1,AR2,5), labels= expression(phi[2], frac(phi [1]+phi[2],2), phi[1]),[] Underfull \hbox (badness 3240) in paragraph at lines 27579--27582 [][][]\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 [1742] Overfull \hbox (36.7804pt too wide) in paragraph at lines 27600--27600 [] \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 27603--27603 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(-.5,6), xlim = c(-1, 8),[] [1743] Overfull \hbox (4.38043pt too wide) in paragraph at lines 27686--27686 [] \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 27690--27690 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5), xlim = c(-1/4, 5),[] Overfull \hbox (58.38037pt too wide) in paragraph at lines 27700--27700 [] \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)[] [1744] Overfull \hbox (106.98032pt too wide) in paragraph at lines 27705--27705 [] \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 27741--27747 []\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 27763--27763 []\T1/pcr/m/n/9 print(getInitial(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), dat a = Indo.1),[] [1745] Overfull \hbox (25.98041pt too wide) in paragraph at lines 27779--27779 [] \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 27793--27793 []\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 27795--27795 [] \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 27798--27798 []\T1/pcr/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (123.1803pt too wide) in paragraph at lines 27800--27800 [] \T1/pcr/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1746] [1747] Overfull \hbox (30.78088pt too wide) in paragraph at lines 27912--27912 []\T1/pcr/m/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input) - exp(-exp(lK a)*input)) [1748] Underfull \hbox (badness 2922) in paragraph at lines 27974--27979 []\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 [1749] Overfull \hbox (69.18036pt too wide) in paragraph at lines 28012--28012 [] \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "A", phi[2] == "B", phi[3] == "xm id", phi[4] == "scal")))[] Underfull \hbox (badness 2922) in paragraph at lines 28061--28066 []\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 [1750] Overfull \hbox (4.38043pt too wide) in paragraph at lines 28092--28092 []\T1/pcr/m/n/9 lines(x, do.call(SSgompertz, c(list(x=x), coef(fm1))), col = " red", lwd=2)[] Underfull \hbox (badness 2922) in paragraph at lines 28126--28131 []\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 [1751] Overfull \hbox (25.98041pt too wide) in paragraph at lines 28151--28151 []\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 28155--28155 []\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 28175--28175 [] \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "Asym", phi[2] == "xmid", phi[3] == "scal")))[] [1752] Overfull \hbox (20.58041pt too wide) in paragraph at lines 28185--28185 [] \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 28220--28225 []\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 28242--28242 []\T1/pcr/m/n/9 print(getInitial(rate ~ SSmicmen(conc, Vm, K), data = PurTrt), digits = 3)[] [1753] Overfull \hbox (15.18042pt too wide) in paragraph at lines 28260--28260 [] \T1/pcr/m/n/9 ann = FALSE, axes = FALSE, main = "Parameters in the SS micmen model")[] [1754] Underfull \hbox (badness 6493) in paragraph at lines 28312--28317 []\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 28340--28340 []\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 28343--28343 []\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 28346--28346 []\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 28349--28349 []\T1/pcr/m/n/9 As <- coef(fm1)[["Asym"]]; abline(v = 0, h = c(As, As - coef(f m1)[["Drop"]]), lty = 3)[] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] Underfull \hbox (badness 3396) in paragraph at lines 29233--29235 []\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 [1769] [1770] [1771] Underfull \hbox (badness 2237) in paragraph at lines 29412--29414 []\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 [1772] [1773] Underfull \hbox (badness 2591) in paragraph at lines 29576--29578 []\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 [1774] Underfull \hbox (badness 2237) in paragraph at lines 29622--29625 []\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 [1775] Overfull \hbox (48.78088pt too wide) in paragraph at lines 29695--29695 []\T1/pcr/m/n/10 supsmu(x, y, wt =, span = "cv", periodic = FALSE, bass = 0, t race = FALSE) [1776] [1777] Underfull \hbox (badness 3407) in paragraph at lines 29804--29808 []\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) [1778] Overfull \hbox (47.58038pt too wide) in paragraph at lines 29874--29874 []\T1/pcr/m/n/9 symnum(ii, cutpoints = 2*(0:4), symbols = c(".", "-", "+", "$ "), show.max = TRUE)[] [1779] Underfull \hbox (badness 1337) in paragraph at lines 29937--29941 []\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 [1780] [1781] [1782] [1783] Overfull \hbox (9.78043pt too wide) in paragraph at lines 30202--30202 []\T1/pcr/m/n/9 persp(tt, ncp, ptn, zlim = 0:1, r = 2, phi = 20, theta = 200, main = t.tit,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 30230--30230 [] \T1/pcr/m/n/10 use.factor.levels = TRUE, smooth = NULL, ylim = "com mon",[] [1784] Underfull \hbox (badness 1616) in paragraph at lines 30256--30259 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1785] Overfull \hbox (20.58041pt too wide) in paragraph at lines 30335--30335 []\T1/pcr/m/n/9 termplot(model, partial.resid = TRUE, smooth = panel.smooth, s pan.smth = 1/4)[] [1786] Overfull \hbox (0.78088pt too wide) in paragraph at lines 30413--30413 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = TRUE,[] [1787] [1788] Underfull \hbox (badness 2205) in paragraph at lines 30508--30513 []\T1/ptm/m/n/10 If a []\T1/pcr/m/n/10 specials []\T1/ptm/m/n/10 ar-gu-ment was given to [][][]\T1/pcr/m/n/10 terms.formula[][][] []\T1/ptm/m/n/10 there is a [1789] [1790] Overfull \hbox (12.78088pt too wide) in paragraph at lines 30649--30649 []\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 30655--30659 []\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 Overfull \hbox (36.7804pt too wide) in paragraph at lines 30692--30692 []\T1/pcr/m/n/9 # Matrix of character (could also have logical, raw, complex . .) {also warning}:[] [1791] Overfull \hbox (36.7804pt too wide) in paragraph at lines 30705--30705 [] \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 30716--30716 []\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 30718--30718 []\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 30748--30748 [] \T1/pcr/m/n/10 class = if(nseries > 1) c("mts", "ts", "matrix", "array") else "ts",[] [1792] [1793] Underfull \hbox (badness 1655) in paragraph at lines 30826--30829 []\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 , [1794] [1795] [1796] [1797] [1798] Overfull \hbox (12.78088pt too wide) in paragraph at lines 31190--31190 []\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 31191--31191 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE)[] [1799] [1800] [1801] [1802] [1803] Overfull \hbox (30.78088pt too wide) in paragraph at lines 31491--31491 [] \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 31492--31492 [] \T1/pcr/m/n/10 tol = .Machine$double.eps^0.25, maxiter = 1000, trace = 0)[] [1804] [1805] Overfull \hbox (31.3804pt too wide) in paragraph at lines 31621--31621 []\T1/pcr/m/n/9 ##--- uniroot() with new interval extension + checking feature s: --------------[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 31630--31630 []\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 [1806] [1807] [1808] Underfull \hbox (badness 1337) in paragraph at lines 31847--31851 []\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 [1809] [1810] [1811] [1812] [1813] [1814] [1815] [1816] Underfull \hbox (badness 1337) in paragraph at lines 32376--32380 []\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 [1817] [1818] [1819] Overfull \hbox (117.7803pt too wide) in paragraph at lines 32584--32584 []\T1/pcr/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 32586--32586 []\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)[] [1820] [1821] [1822] Overfull \hbox (138.78088pt too wide) in paragraph at lines 32745--32745 [] \T1/pcr/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1823] Overfull \hbox (0.78088pt too wide) in paragraph at lines 32830--32830 []\T1/pcr/m/n/10 xtabs(formula = ~., data = parent.frame(), subset, sparse = F ALSE, [1824] [1825] Overfull \hbox (47.58038pt too wide) in paragraph at lines 32963--32963 []\T1/pcr/m/n/9 ## The Female:Rejected combination has NA \TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 Freq\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 (and NA prints \TS1/pcr/m/n/9 '\T1 /pcr/m/n/9 invisibly\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 as "")[] [1826]) (./stats4-pkg.tex Chapter 11. [1827] [1828] [1829] Overfull \hbox (15.18042pt too wide) in paragraph at lines 224--224 [] \T1/pcr/m/n/9 -sum(stats::dpois(y, lambda = exp(lymax)/(1+x/exp(lxhalf)) , log = TRUE))[] Underfull \vbox (badness 10000) has occurred while \output is active [1830] Overfull \hbox (9.78043pt too wide) in paragraph at lines 278--278 []\T1/pcr/m/n/9 ## Boundary case: This works, but fails if limits are set clos er to 0 and 1[] [1831] [1832] [1833] [1834]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1835] [1836] [1837]) (./tcltk-pkg.tex [1838] Chapter 12. [1839] [1840] [1841] [1842] [1843] Overfull \hbox (36.7804pt too wide) in paragraph at lines 360--360 []\T1/pcr/m/n/9 ls(envir = .TkRoot$env, all.names = TRUE) # .Tcl.args put a ca llback ref in here[] [1844] [1845] Underfull \vbox (badness 10000) has occurred while \output is active [1846] Underfull \hbox (badness 1292) in paragraph at lines 671--678 []\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 Underfull \vbox (badness 1603) has occurred while \output is active [1847] [1848] [1849] [1850] [1851] Underfull \vbox (badness 10000) has occurred while \output is active [1852] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1084--1084 []\T1/pcr/m/n/9 eval.txt <- function() eval(str2lang(tclvalue(tkget(txt.w, "0. 0", "end"))))[] [1853] [1854] [1855] [1856] [1857] Underfull \hbox (badness 1189) in paragraph at lines 1412--1415 [][][]\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 [1858]) (./tools-pkg.tex Chapter 13. [1859] 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.[] [1860] 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 [1861] 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)[] [1862] Underfull \hbox (badness 5147) in paragraph at lines 288--301 []\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 288--301 \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 288--301 \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 , [1863] Overfull \hbox (42.78088pt too wide) in paragraph at lines 373--373 []\T1/pcr/m/n/10 buildVignette(file, dir = ".", weave = TRUE, latex = TRUE, ta ngle = TRUE, Underfull \hbox (badness 2460) in paragraph at lines 392--394 []\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 [1864] [1865] Underfull \hbox (badness 1142) in paragraph at lines 464--468 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1866] [1867] [1868] [1869] [1870] [1871] [1872] Overfull \hbox (0.78088pt too wide) in paragraph at lines 921--921 []\T1/pcr/m/n/10 resaveRdaFiles(paths, compress = c("auto", "gzip", "bzip2", " xz"),[] [1873] Overfull \hbox (31.3804pt too wide) in paragraph at lines 976--976 []\T1/pcr/m/n/9 bad <- is.na(res$ASCII) | res$ASCII | (res$size > 1e4 & res$co mpress == "none")[] [1874] [1875] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1145--1145 [] \T1/pcr/m/n/10 outputs = FALSE, sources = FALS E, ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1146--1146 []\T1/pcr/m/n/10 check_packages_in_dir_details(dir, logs = NULL, drop_ok = TRU E, ...)[] [1876] Underfull \hbox (badness 1014) in paragraph at lines 1188--1190 []\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 1194--1196 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1877] Underfull \hbox (badness 10000) in paragraph at lines 1231--1234 []\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 1231--1234 \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 1239--1242 []\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 [1878] [1879] Underfull \hbox (badness 10000) in paragraph at lines 1386--1389 []\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 [1880] [1881] Underfull \hbox (badness 4647) in paragraph at lines 1558--1563 []\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 1558--1563 \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 1558--1563 \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 [1882] Underfull \hbox (badness 2762) in paragraph at lines 1607--1610 []\T1/ptm/m/n/10 Internal func-tions []\T1/pcr/m/n/10 CRAN_aliases_db[]\T1/ptm/ m/n/10 , []\T1/pcr/m/n/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CR AN_current_db []\T1/ptm/m/n/10 and [1883] [1884] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1719--1719 [] \T1/pcr/m/n/10 utils::installed.packages(lib.loc, fields = "En hances"))[] Underfull \hbox (badness 7981) in paragraph at lines 1726--1734 []\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 1726--1734 []\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", Underfull \hbox (badness 1558) in paragraph at lines 1726--1734 \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, [1885] [1886] [1887]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1938 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1939 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1888] [1889] [1890] [1891] Underfull \hbox (badness 1142) in paragraph at lines 2208--2214 []\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 [1892] Underfull \hbox (badness 2359) in paragraph at lines 2272--2279 []\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 2272--2279 \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 2272--2279 \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 [1893] Underfull \hbox (badness 1342) in paragraph at lines 2324--2330 \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 2349--2356 []\T1/pcr/m/n/10 matchConcordance []\T1/ptm/m/n/10 con-verts from out-put lo-ca -tions to source lo-ca-tions. 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[1895] [1896] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2538--2538 []\T1/pcr/m/n/10 package_dependencies(packages = NULL, db = NULL, which = "str ong", Underfull \hbox (badness 7981) in paragraph at lines 2553--2561 []\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 2553--2561 []\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", Underfull \hbox (badness 1558) in paragraph at lines 2553--2561 \T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . 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Rd"),[] [1902] Underfull \hbox (badness 2486) in paragraph at lines 2951--2959 []\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 [1903] [1904] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3163--3163 []\T1/pcr/m/n/10 checkDocFiles (package, dir, lib.loc = NULL, chkInternal = FALSE) [1905] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3167--3167 []\T1/pcr/m/n/10 checkRdContents (package, dir, lib.loc = NULL, chkInternal = FALSE)[] [1906] [1907] [1908] Underfull \hbox (badness 1072) in paragraph at lines 3359--3361 []\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 [1909] [1910] [1911] [1912] [1913] Overfull \hbox (72.78088pt too wide) in paragraph at lines 3707--3707 [] \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macro s", "system.Rd"))[] Underfull \hbox (badness 5417) in paragraph at lines 3745--3755 []\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 , [1914] [1915] [1916] Underfull \hbox (badness 4108) in paragraph at lines 3955--3962 []\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 [1917] [1918] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4055--4055 [] \T1/pcr/m/n/10 types = c("examples", "tests", "vignett es"),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4058--4058 []\T1/pcr/m/n/10 testInstalledBasic(scope = c("basic", "devel", "both", "inter net"))[] Underfull \hbox (badness 10000) in paragraph at lines 4075--4077 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1919] Underfull \hbox (badness 2932) in paragraph at lines 4092--4098 []\T1/pcr/m/n/10 testInstalledBasic []\T1/ptm/m/n/10 runs the ba-sic tests, if in-stalled. This should be run with [1920] Underfull \hbox (badness 7832) in paragraph at lines 4214--4217 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/pcr/m/n/10 texi2dvi []\T1/ptm/m/n/10 5 .0 and later; []\T1/pcr/m/n/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op-ti on [1921] [1922] [1923] [1924] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4449--4449 [] \T1/pcr/m/n/10 "mac.binary", "win.binary"), verbose.level = as.integer(dry run),[] [1925] [1926] Overfull \hbox (96.78088pt too wide) in paragraph at lines 4611--4611 []\T1/pcr/m/n/10 update_pkg_po(pkgdir, pkg = NULL, version = NULL, mergeOpts = "", copyright, bugs) Underfull \hbox (badness 3118) in paragraph at lines 4622--4626 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/pcr/m/n/10 m sgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 10000) in paragraph at lines 4626--4629 []\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 [1927] Underfull \hbox (badness 6859) in paragraph at lines 4642--4647 []\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 4650--4656 []\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 4650--4656 \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 [1928] [1929] [1930] Underfull \hbox (badness 10000) in paragraph at lines 4876--4878 []\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 [1931] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4905--4905 [] \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F ALSE,[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 4906--4906 [] \T1/pcr/m/n/10 latestOnly = TRUE, addFiles = FALSE, rds_compr ess = "xz",[] Underfull \hbox (badness 3240) in paragraph at lines 4919--4922 []\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 4923--4933 []\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 , Underfull \hbox (badness 1127) in paragraph at lines 4961--4967 []\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 4961--4967 \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 ', [1932] Underfull \hbox (badness 1571) in paragraph at lines 4989--4993 []\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 5015--5020 \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 [1933] [1934] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5157--5157 []\T1/pcr/m/n/9 xgettext(tmpPkg, asCall=TRUE )[[1]] # default; shows \TS1/pcr /m/n/9 ' \T1/pcr/m/n/9 sqrt(as.complex(x)) \TS1/pcr/m/n/9 '[] [1935]) (./utils-pkg.tex [1936] 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 ', [1937] [1938] [1939] [1940] Overfull \hbox (4.38043pt too wide) in paragraph at lines 261--261 []\T1/pcr/m/n/9 find("cor", numeric = TRUE) # numbers with these names[] [1941] [1942] Underfull \hbox (badness 10000) in paragraph at lines 381--386 \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 387--389 []\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 [1943] Overfull \hbox (9.78043pt too wide) in paragraph at lines 453--453 []\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 455--455 []\T1/pcr/m/n/9 .arrangeWindowsDefaults <- list(c("R", "all"), pattern = c("", "Firefox"))[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 472--472 [] \T1/pcr/m/n/10 prompts = getOption("askYesNo", gettext(c("Yes", "No ", "Cancel"))),[] [1944] [1945] [1946] Overfull \hbox (0.78088pt too wide) in paragraph at lines 686--686 []\T1/pcr/m/n/10 aspell_package_Rd_files(dir, drop = c("\\author", "\\referenc es"), Overfull \hbox (6.78088pt too wide) in paragraph at lines 692--692 []\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 693--693 [] \T1/pcr/m/n/10 program = NULL, dictionaries = charact er())[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 694--694 []\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 695--695 [] \T1/pcr/m/n/10 program = NULL, dictionaries = charact er())[] [1947] Underfull \hbox (badness 10000) in paragraph at lines 729--735 []\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 729--735 []\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- [1948] [1949] [1950] [1951] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1053--1053 []\T1/pcr/m/n/10 bibentry(bibtype, textVersion = NULL, header = NULL, footer = NULL, [1952] Underfull \hbox (badness 7649) in paragraph at lines 1127--1133 [][][]\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 1127--1133 \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 1127--1133 \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 1817) in paragraph at lines 1127--1133 \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 1136--1138 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1953] [1954] Underfull \hbox (badness 10000) in paragraph at lines 1255--1258 []\T1/ptm/m/n/10 The DOI ([][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Digital _ Object _ [1955] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1338--1338 [] \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi nkley [aut]"),[] Underfull \vbox (badness 10000) has occurred while \output is active [1956] [1957] [1958] [1959] [1960] [1961] Underfull \hbox (badness 1859) in paragraph at lines 1747--1756 []\T1/ptm/m/n/10 For ex-am-ple, sup-pose that on a data set which you know to b e quite large the com- Underfull \hbox (badness 2042) in paragraph at lines 1747--1756 \T1/ptm/m/n/10 mand []\T1/pcr/m/n/10 data.frame(x, y, z, monday, tuesday) []\T1 /ptm/m/n/10 never re-turns. Do not re-port that [1962] [1963] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1852--1852 [] \T1/pcr/m/n/9 data = infert, family = b inomial())))[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 1887--1887 []\T1/pcr/m/n/10 changedFiles(before, after, path = before$path, timestamp = b efore$timestamp,[] [1964] [1965] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2033--2033 []\T1/pcr/m/n/9 snapshot <- fileSnapshot(dir, timestamp = tempfile("timestamp" ), md5sum=TRUE)[] [1966] Underfull \hbox (badness 2277) in paragraph at lines 2102--2107 []\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 [1967] Overfull \hbox (36.7804pt too wide) in paragraph at lines 2134--2134 []\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 2136--2136 []\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 2144--2144 []\T1/pcr/m/n/9 ## How many printable characters are there? (Around 280,000 in Unicode 13.)[] [1968] [1969] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2292--2292 []\T1/pcr/m/n/10 chooseBioCmirror(graphics = getOption("menu.graphics"), ind = NULL, [1970] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2344--2344 []\T1/pcr/m/n/10 chooseCRANmirror(graphics = getOption("menu.graphics"), ind = NULL, [1971] Underfull \hbox (badness 1117) in paragraph at lines 2459--2466 []\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 2459--2466 \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 [1972] [1973] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2542--2542 []\T1/pcr/m/n/10 citeNatbib(keys, bib, textual = FALSE, before = NULL, after = NULL,[] [1974] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2662--2662 [] \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi nkley [aut]"),[] [1975] Overfull \hbox (24.78088pt too wide) in paragraph at lines 2702--2702 []\T1/pcr/m/n/10 citEntry(entry, textVersion = NULL, header = NULL, footer = N ULL, ...) Underfull \hbox (badness 1082) in paragraph at lines 2731--2735 [][][]\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; [1976]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cli pboard}) has been already used, duplicate ignored \relax l.2736 ... the Clipboard in MS Windows}{clipboard} Underfull \hbox (badness 1163) in paragraph at lines 2767--2769 []\T1/ptm/m/n/10 The Win-dows clip-board of-fers data in a num-ber of for-mats: see e.g. [][]$\T1/pcr/m/n/10 https : / / docs . Overfull \vbox (1.12102pt too high) has occurred while \output is active [1977] [1978] Underfull \hbox (badness 10000) in paragraph at lines 2860--2862 []\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 [1979] [1980] [1981] Underfull \hbox (badness 10000) in paragraph at lines 3078--3080 []\T1/ptm/m/n/10 character string, in-di-cat-ing which type of pack-ages: see [1982] [1983] [1984] [1985] Underfull \hbox (badness 1762) in paragraph at lines 3371--3374 []\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 = [1986] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3463--3463 []\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 3464--3464 []\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 '[] [1987] Underfull \hbox (badness 2452) in paragraph at lines 3538--3541 []\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 [1988] [1989] [1990] [1991] [1992] [1993] Overfull \hbox (74.58035pt too wide) in paragraph at lines 3967--3967 [] \T1/pcr/m/n/9 DLL.version(file.path(R.home(), "library/stats/libs", .Platf orm$r_arch, "stats.dll"))[] [1994] Underfull \hbox (badness 4779) in paragraph at lines 4046--4051 []\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 [1995] Underfull \hbox (badness 1072) in paragraph at lines 4109--4113 []\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 [1996] Underfull \hbox (badness 7238) in paragraph at lines 4165--4170 []\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 4165--4170 \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 4180--4196 \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- [1997] [1998] Underfull \hbox (badness 4660) in paragraph at lines 4306--4309 \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 4330--4332 []\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 [1999] [2000] [2001] Underfull \hbox (badness 1565) in paragraph at lines 4517--4521 []\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 [2002] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4600--4600 [] \T1/pcr/m/n/10 character.only = FALSE, give.lines = FALSE, local = F ALSE,[] [2003] Underfull \hbox (badness 1910) in paragraph at lines 4634--4641 \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 4634--4641 \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 4634--4641 []\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 4634--4641 \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 4641--4648 []\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) [2004] [2005] [2006] Underfull \hbox (badness 5939) in paragraph at lines 4887--4889 []\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 [2007] [2008] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5030--5030 []\T1/pcr/m/n/9 # Set a breakpoint in both copies of that function, assuming o ne is in the[] [2009] [2010]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.format}) has been already used, duplicate ignored \relax l.5101 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.5101 ...mat Unordered and Ordered Lists}{format} [2011] [2012] [2013] [2014] [2015] [2016] [2017] [2018] Underfull \hbox (badness 1622) in paragraph at lines 5624--5628 []\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 [2019] [2020] [2021] [2022] [2023] Underfull \hbox (badness 1448) in paragraph at lines 6003--6008 []\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 [2024] [2025] Overfull \hbox (96.78088pt too wide) in paragraph at lines 6153--6153 []\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[] [2026] Overfull \hbox (66.78088pt too wide) in paragraph at lines 6165--6165 []\T1/pcr/m/n/10 tail(x, n = 6L, keepnums = TRUE, addrownums, ...) # exported as tail.matrix()[] [2027] [2028] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6299--6299 [] \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 6300--6300 [] \T1/pcr/m/n/9 ## --- because [i,j]-indexing of data frames *also* drops "other" attributes ..[] [2029] [2030] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6510--6510 [] \T1/pcr/m/n/9 ## -> nicely formatted pdf -- including math formula -- for h elp(dgamma):[] [2031] Underfull \hbox (badness 10000) in paragraph at lines 6594--6596 []\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 [2032] Underfull \hbox (badness 1502) in paragraph at lines 6643--6648 []\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 6643--6648 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2033] [2034] [2035] Underfull \hbox (badness 10000) in paragraph at lines 6816--6825 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, Underfull \hbox (badness 10000) in paragraph at lines 6816--6825 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 R.home("docs")/html/packages.html\T1/ptm/m/n/10 ', which can be re-made by [2036] Underfull \hbox (badness 2150) in paragraph at lines 6880--6883 []\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 6896--6899 []\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 [2037] [2038] Underfull \hbox (badness 3118) in paragraph at lines 7019--7021 []\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 [2039] [2040] Underfull \hbox (badness 5091) in paragraph at lines 7194--7196 []\T1/ptm/m/n/10 download method, see [][][]\T1/pcr/m/n/10 download.file[][][][ ]\T1/ptm/m/n/10 . Un-used if a non-[]\T1/pcr/m/n/10 NULL Underfull \hbox (badness 10000) in paragraph at lines 7224--7231 []\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 7224--7231 \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 7224--7231 \T1/pcr/m/n/10 "LinkingTo") []\T1/ptm/m/n/10 for added de-pen-den-cies: this in -stalls all the pack-ages [2041] Underfull \hbox (badness 1270) in paragraph at lines 7239--7249 \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 4441) in paragraph at lines 7282--7285 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be passed to Underfull \hbox (badness 2837) in paragraph at lines 7282--7285 []\T1/pcr/m/n/10 R 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 1424) in paragraph at lines 7290--7293 []\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 [2042] Underfull \hbox (badness 2376) in paragraph at lines 7361--7368 []\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 7361--7368 \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 7361--7368 \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 7369--7372 []\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 [2043] Underfull \hbox (badness 1314) in paragraph at lines 7449--7456 []\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 [2044] Underfull \hbox (badness 10000) in paragraph at lines 7532--7537 [][][]\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 7555--7555 [] \T1/pcr/m/n/9 configure.args = c(RNetCDF = "--with-netcdf-include=/usr/inc lude/udunits2"))[] [2045] Underfull \hbox (badness 5133) in paragraph at lines 7591--7595 []\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 7605--7608 []\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 [2046] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7652--7652 []\T1/pcr/m/n/9 plic <- installed.packages(.Library, priority = "high", fields = "License")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7657--7657 []\T1/pcr/m/n/9 ## Keep packages that come with R (priority="high") and all ot hers separate![] [2047] [2048] Underfull \hbox (badness 4132) in paragraph at lines 7783--7785 []\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 [2049] [2050] [2051] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7950--7950 []\T1/pcr/m/n/9 ls.str(mode = "list") #- what are the structured objects I h ave defined?[] [2052] [2053] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8093--8093 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F ALSE) [2054] Underfull \hbox (badness 10000) in paragraph at lines 8133--8135 []\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 [2055] Underfull \hbox (badness 10000) in paragraph at lines 8238--8240 []\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 8243--8245 []\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 [2056] [2057] [2058] [2059] Underfull \hbox (badness 1859) in paragraph at lines 8471--8474 []\T1/ptm/m/n/10 logical spec-i-fy-ing that the news should be opened in the br owser (by Underfull \hbox (badness 1052) in paragraph at lines 8490--8500 \T1/ptm/m/n/10 ac-cord-ing to ver-sion us-ing \T1/pcr/m/n/10 section \T1/ptm/m/ n/10 el-e-ments with names start-ing with a suit-able pre-fix [2060] Underfull \hbox (badness 1655) in paragraph at lines 8565--8568 []\T1/ptm/m/n/10 A data frame in-her-it-ing from class []\T1/pcr/m/n/10 "news_d b"[]\T1/ptm/m/n/10 , with [][][]\T1/pcr/m/n/10 attributes[][][] "package" []\T1 /ptm/m/n/10 (and Overfull \hbox (25.98041pt too wide) in paragraph at lines 8576--8576 []\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 8584--8584 []\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):[] [2061] Overfull \hbox (47.58038pt too wide) in paragraph at lines 8592--8592 []\T1/pcr/m/n/9 ## Which categories have been in use? % R-core maybe should st andardize a bit more[] [2062] Underfull \hbox (badness 1917) in paragraph at lines 8679--8681 []\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 , [2063] Underfull \vbox (badness 10000) has occurred while \output is active [2064] [2065] [2066] Overfull \hbox (66.78088pt too wide) in paragraph at lines 8953--8953 [] \T1/pcr/m/n/10 date.fields = c("Date", "Packaged", "Date/Publica tion", "Built"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 8954--8954 [] \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 8955--8955 [] \T1/pcr/m/n/10 desc = packageDescription(pkg, lib.loc=lib.loc, f ields=date.fields))[] [2067] Underfull \hbox (badness 10000) in paragraph at lines 8983--8985 []\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 8997--8999 []\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 9005--9010 []\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, [2068] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9049--9049 [] \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 9050--9050 [] \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[] [2069] [2070] Underfull \hbox (badness 10000) in paragraph at lines 9178--9183 []\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 9185--9188 []\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 [2071] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9300--9300 [] \T1/pcr/m/n/10 include = c("given", "family", "email", "role", "comme nt"),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9301--9301 [] \T1/pcr/m/n/10 braces = list(given = "", family = "", email = c("<", ">"),[] [2072] [2073] [2074] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9481--9481 [] \T1/pcr/m/n/9 "S original, "),[] [2075] [2076] Underfull \hbox (badness 1789) in paragraph at lines 9651--9653 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] [2087] [2088] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10489--10489 [] \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", " no.loss"),[] [2089] [2090] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10650--10650 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header = TRUE, tr anspose = TRUE)[] [2091] [2092] [2093] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10831--10831 []\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[] [2094] Overfull \hbox (42.78088pt too wide) in paragraph at lines 10917--10917 [] \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", "no.loss"),[] Overfull \hbox (72.78088pt too wide) in paragraph at lines 10918--10918 [] \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 10920--10920 [] \T1/pcr/m/n/10 skip = 0, check.names = TRUE, fill = !blank.lines. skip,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 10925--10925 [] \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, ski pNul = FALSE)[] [2095] Underfull \hbox (badness 2027) in paragraph at lines 10997--11000 []\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 [2096] Underfull \hbox (badness 2435) in paragraph at lines 11020--11024 []\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 11020--11024 []\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 [2097] [2098] [2099] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11281--11281 []\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 11282--11282 [] \T1/pcr/m/n/10 maxdepth = 1, view = c("default", "32-bit", "64- bit"))[] Underfull \hbox (badness 10000) in paragraph at lines 11289--11294 []\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 11289--11294 \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 11289--11294 []\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 [2100] [2101] [2102] [2103] Overfull \hbox (18.78088pt too wide) in paragraph at lines 11521--11521 [] \T1/pcr/m/n/10 ipar <- list(mean = c(0, 1), vcov = c bind(c(1, 1), c (1, 0))) [2104] [2105] [2106] [2107] Underfull \hbox (badness 10000) in paragraph at lines 11787--11791 \T1/pcr/m/n/10 en . wikipedia . org / w / index . php ? title = Roman _ numeral s & oldid = 78252134$[][]\T1/ptm/m/n/10 . Overfull \hbox (20.58041pt too wide) in paragraph at lines 11805--11805 []\T1/pcr/m/n/9 as.roman(c(NA, 1:3, "", strrep("I", 1:6))) # + NA with a warni ng for "IIIIII"[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11810--11810 []\T1/pcr/m/n/9 ## simple consistency checks -- arithmetic when result is in {1,2,..,3899} :[] [2108] [2109] Overfull \hbox (18.78088pt too wide) in paragraph at lines 11946--11946 []\T1/pcr/m/n/10 4. | \-base:::tryCatchOne(expr, names, parentenv, handler s[[1L]])[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 11947--11947 []\T1/pcr/m/n/10 5. | \-base:::doTryCatch(return(expr), name, parentenv, handler)[] [2110] [2111] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12082--12082 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold = 0) [2112] [2113] Underfull \hbox (badness 1917) in paragraph at lines 12214--12217 []\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 12214--12217 \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 12237--12237 []\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 '[] [2114] [2115] Overfull \hbox (54.78088pt too wide) in paragraph at lines 12329--12329 [] \T1/pcr/m/n/10 restrict = c("functions", "descriptions", "news", "Rfunctions",[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 12330--12330 [] \T1/pcr/m/n/10 "Rmanuals", "READMEs", "views", "vig nettes"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 12332--12332 [] \T1/pcr/m/n/10 sortby = c("score", "date:late", "date:early", "s ubject",[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 12333--12333 [] \T1/pcr/m/n/10 "subject:descending", "size", "size:de scending"),[] Underfull \hbox (badness 6725) in paragraph at lines 12356--12364 \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 12356--12364 \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 [2116] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12401--12401 []\T1/pcr/m/n/9 fullquery <- RSiteSearch("lattice", restrict = c("vignettes"," Rfunctions"))[] [2117] Underfull \hbox (badness 1377) in paragraph at lines 12457--12460 []\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 Underfull \hbox (badness 3646) in paragraph at lines 12492--12494 [][][]$\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 / [2118] Overfull \hbox (30.78088pt too wide) in paragraph at lines 12530--12530 [] \T1/pcr/m/n/10 split = FALSE, quiet = FALSE, drop.evalFALSE = F ALSE, ...)[] [2119] [2120] Underfull \hbox (badness 10000) in paragraph at lines 12712--12716 []\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 [2121] Underfull \hbox (badness 10000) in paragraph at lines 12745--12751 []\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 12760--12766 []\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 [2122] [2123] Overfull \hbox (6.78088pt too wide) in paragraph at lines 12917--12917 [] \T1/pcr/m/n/10 units = "in", type = "quartz", bg = "transpa rent")[] Underfull \hbox (badness 1009) in paragraph at lines 12935--12947 []\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 [2124] Underfull \hbox (badness 2600) in paragraph at lines 12975--12977 []\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 Underfull \hbox (badness 1043) in paragraph at lines 13018--13023 []\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 [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 1888) in paragraph at lines 13320--13323 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the plat-form \T1/phv/m/n/10 R \T1/ptm/m/n/10 was built un-der. Where Underfull \hbox (badness 10000) in paragraph at lines 13337--13340 []\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 13340--13343 []\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in g [2130] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13386--13386 []\T1/pcr/m/n/9 toLatex(sI, locale = FALSE) # shortest; possibly desirable at end of report[] [2131] Underfull \hbox (badness 2158) in paragraph at lines 13445--13448 []\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 Overfull \hbox (0.78088pt too wide) in paragraph at lines 13493--13493 []\T1/pcr/m/n/10 setWindowTitle(suffix, title = paste(getIdentification(), suf fix)) [2132] [2133] [2134] Underfull \hbox (badness 2302) in paragraph at lines 13650--13652 []\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 [2135] Underfull \hbox (badness 3333) in paragraph at lines 13758--13760 []\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- [2136] [2137] [2138] Overfull \hbox (42.78088pt too wide) in paragraph at lines 13925--13925 [] \T1/pcr/m/n/10 format(x, trim = TRUE, drop0trailing = TRUE, ...))[] Underfull \hbox (badness 2012) in paragraph at lines 13949--13954 []\T1/ptm/m/n/10 logical; if []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 (de-fault), [][][]\T1/pcr/m/n/10 deparse[][][](control = ) []\T1/ptm/m/n/10 will not ha ve Underfull \hbox (badness 5970) in paragraph at lines 13958--13961 []\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 13958--13961 [][][]\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 13969--13978 []\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; [2139] Underfull \hbox (badness 1442) in paragraph at lines 13985--13989 []\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 14031--14031 []\T1/pcr/m/n/9 str(.Machine, digits.d = 20) # extra digits for identification of binary numbers[] [2140] Overfull \hbox (15.18042pt too wide) in paragraph at lines 14058--14058 []\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 14065--14065 []\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 14067--14067 []\T1/pcr/m/n/9 invisible(lapply(60:66, function(N) str( ch , nchar.max = N))) # "1 is 1" here[] [2141] [2142] [2143] Underfull \hbox (badness 10000) in paragraph at lines 14233--14235 []\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 [2144] Underfull \hbox (badness 10000) in paragraph at lines 14343--14346 []\T1/ptm/m/n/10 further ar-gu-ments passed to the driver's setup func-tion. Se e Underfull \hbox (badness 1389) in paragraph at lines 14343--14346 [][][]\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- [2145] Underfull \hbox (badness 6300) in paragraph at lines 14391--14398 []\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 14391--14398 \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 14391--14398 \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 [2146] [2147] Underfull \hbox (badness 2020) in paragraph at lines 14555--14563 \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 14555--14563 \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 [2148] Underfull \hbox (badness 1622) in paragraph at lines 14564--14571 []\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 [2149] Underfull \hbox (badness 5022) in paragraph at lines 14705--14709 []\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 14712--14715 [][][]$\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 14712--14715 \T1/pcr/m/n/10 opengroup . org / onlinepubs / 9699919799 / utilities / pax . ht ml # tag _ 20 _ 92 _ [2150] [2151] [2152] [2153] [2154] [2155] [2156] [2157] [2158] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15330--15330 [] \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc, ...),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15336--15336 [] \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc, ...),[] [2159] Underfull \hbox (badness 4467) in paragraph at lines 15357--15359 []\T1/ptm/m/n/10 Download method, see [][][]\T1/pcr/m/n/10 download.file[][][][ ]\T1/ptm/m/n/10 . Un-used if a non-[]\T1/pcr/m/n/10 NULL Underfull \hbox (badness 4660) in paragraph at lines 15372--15376 \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 15386--15390 []\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 15392--15397 []\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 15392--15397 \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 15392--15397 []\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 15398--15400 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See [2160] Underfull \hbox (badness 10000) in paragraph at lines 15428--15433 []\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 15428--15433 \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 Underfull \hbox (badness 10000) in paragraph at lines 15449--15454 []\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 15457--15460 [][][]\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 , [2161] Overfull \hbox (15.18042pt too wide) in paragraph at lines 15534--15534 []\T1/pcr/m/n/9 ## Not run: url.show("https://www.stats.ox.ac.uk/pub/datasets/ csb/ch3a.txt") [2162] [2163] [2164] Underfull \hbox (badness 2293) in paragraph at lines 15741--15744 [][][]\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[][][](, [2165] Overfull \hbox (42.18039pt too wide) in paragraph at lines 15757--15757 []\T1/pcr/m/n/9 ## Note that \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 package = *\TS1/pcr /m/n/9 ' \T1/pcr/m/n/9 is much faster in the case of many installed packages:[] [2166] Overfull \hbox (4.38043pt too wide) in paragraph at lines 15824--15824 [] \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 15846--15846 [] \T1/pcr/m/n/9 nls(weight ~ SSlogis(Time, Asym, xmid, scal), data = DD)))[] [2167] [2168] Underfull \hbox (badness 1297) in paragraph at lines 15978--15980 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the ac-tion when that menu i s se-lected, or [2169] Underfull \hbox (badness 4036) in paragraph at lines 16025--16027 []\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. [2170] [2171] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16145--16145 []\T1/pcr/m/n/10 write.table(x, file = "", append = FALSE, quote = TRUE, sep = " ", [2172] Underfull \hbox (badness 1715) in paragraph at lines 16197--16200 []\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 16242--16244 []\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 = [2173] [2174] [2175]) [2176] [2177] [2178] (./KernSmooth-pkg.tex Chapter 15. [2179] Overfull \hbox (24.78088pt too wide) in paragraph at lines 123--123 []\T1/pcr/m/n/10 bkde2D(x, bandwidth, gridsize = c(51L, 51L), range.x, truncat e = TRUE) [2180] [2181] [2182] [2183] [2184] Overfull \hbox (18.78088pt too wide) in paragraph at lines 518--518 []\T1/pcr/m/n/10 dpill(x, y, blockmax = 5, divisor = 20, trim = 0.01, proptrun = 0.05, [2185] [2186] [2187] [2188]) (./MASS-pkg.tex Chapter 16. [2189] [2190] [2191] [2192] [2193] [2194] [2195] [2196] [2197] [2198] [2199] Overfull \hbox (20.58041pt too wide) in paragraph at lines 772--772 []\T1/pcr/m/n/9 dreg <- cbind(sin = sin(2*pi*beav2$hours/24), cos = cos(2*pi*b eav2$hours/24))[] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] [2221] [2222] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2418--2418 []\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 2422--2422 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", "F"),[] [2223] [2224] [2225] [2226] Underfull \hbox (badness 6559) in paragraph at lines 2701--2704 []\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 [2227] [2228] [2229] Underfull \hbox (badness 10000) in paragraph at lines 2871--2876 []\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 2871--2876 []\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 , [2230] [2231] Underfull \hbox (badness 4686) in paragraph at lines 3043--3045 []\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 [2232] [2233] [2234] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3243--3243 [] \T1/pcr/m/n/10 eps.max = .Machine$double.eps^0.25, verbose = FAL SE, ...)[] [2235] [2236] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3373--3373 []\T1/pcr/m/n/9 survreg(Surv(time, cens) ~ factor(pair) + treat, gehan, dist = "exponential")[] [2237] [2238] [2239] [2240] [2241] [2242] [2243] [2244] [2245] [2246] [2247] Underfull \hbox (badness 1845) in paragraph at lines 4173--4175 []\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 [2248] [2249] [2250] [2251] [2252] [2253] [2254] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4667--4667 [] \T1/pcr/m/n/10 col = 5, xlab = deparse(substitute(data)), bty = "n", ...)[] [2255] [2256] [2257] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4889--4889 []\T1/pcr/m/n/10 lm.ridge(formula, data, subset, na.action, lambda = 0, model = FALSE, [2258] [2259] [2260] [2261] [2262] [2263] [2264] [2265] [2266] [2267] [2268] [2269] [2270] [2271] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5944--5944 []\T1/pcr/m/n/10 mvrnorm(n = 1, mu, Sigma, tol = 1e-6, empirical = FALSE, EISP ACK = FALSE) [2272] Overfull \hbox (48.78088pt too wide) in paragraph at lines 6005--6005 []\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") [2273] [2274]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.npk}) has been already used, duplicate ignored \relax l.6165 ...sical N, P, K Factorial Experiment}{npk} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.npk.1}) has been already used, duplica te ignored \relax l.6165 ...sical N, P, K Factorial Experiment}{npk} [2275] [2276] [2277] [2278] [2279] [2280] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6585--6585 [] \T1/pcr/m/n/9 start = list(fixed=c(L75=c(48.7, -0.03), lsc=0.24)), verb ose = TRUE)))[] [2281] Overfull \hbox (18.78088pt too wide) in paragraph at lines 6673--6673 [] \T1/pcr/m/n/10 dimen, abbrev = FALSE, ..., cex=0.7, type = c("std", "tr ellis"))[] [2282] [2283] [2284] [2285] [2286] [2287] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7112--7112 []\T1/pcr/m/n/9 nlmod <- nls(y ~ Const + A * exp(B * x), start=list(Const=100 , A=10, B=1))[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 7129--7129 [] \T1/pcr/m/n/10 method = c("logistic", "probit", "loglog", "cloglog", "c auchit"))[] [2288] Underfull \hbox (badness 3138) in paragraph at lines 7207--7213 []\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 ) = [2289] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7277--7277 []\T1/pcr/m/n/9 house.plr <- polr(Sat ~ Infl + Type + Cont, weights = Freq, da ta = housing)[] [2290] [2291] Underfull \hbox (badness 1389) in paragraph at lines 7386--7389 []\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, [2292] [2293] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7516--7516 []\T1/pcr/m/n/9 fm <- lqs(stack.loss ~ ., data = stackloss, method = "S", nsam p = "exact")[] [2294] Overfull \hbox (24.78088pt too wide) in paragraph at lines 7581--7581 [] \T1/pcr/m/n/10 method = c("plug-in", "predictive", "debiased", "looC V"), ...)[] [2295] [2296] [2297] [2298] [2299] [2300] Underfull \hbox (badness 4686) in paragraph at lines 8019--8021 []\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 [2301] [2302] Overfull \hbox (6.78088pt too wide) in paragraph at lines 8138--8138 [] \T1/pcr/m/n/10 maxit = 20, acc = 1e-4, test.vec = "resid", lqs.control = NULL)[] Underfull \hbox (badness 1590) in paragraph at lines 8162--8166 []\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 [2303] [2304] [2305] [2306] [2307] [2308] [2309] [2310] [2311] [2312] [2313] [2314] [2315] [2316] [2317] [2318] [2319] [2320] [2321] [2322] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9542--9542 []\T1/pcr/m/n/10 summary(object, method = c("XtX", "XtWX"), correlation = FALS E, ...)[] [2323] Underfull \hbox (badness 2035) in paragraph at lines 9654--9656 []\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 9669--9672 []\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), [2324] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9751--9751 []\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 9753--9753 []\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 9756--9756 []\T1/pcr/m/n/10 theta.mm(y, mu, dfr, weights, limit = 10, eps = .Machine$doub le.eps^0.25)[] [2325] [2326] [2327] [2328] [2329] [2330] [2331] [2332] [2333] [2334] [2335] [2336] [2337]) (./Matrix-pkg.tex [2338] 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 [2339] 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 [2340] 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 [2341] Underfull \hbox (badness 10000) in paragraph at lines 256--259 []\T1/ptm/m/n/10 these three meth-ods are sim-ply us-ing Underfull \hbox (badness 10000) in paragraph at lines 262--264 []\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 [2342] [2343] Overfull \hbox (15.18042pt too wide) in paragraph at lines 445--445 [] \T1/pcr/m/n/9 band(sm5, -1, 1)# "dsyMatrix": symmetric band preserves sym metry property[] [2344] Underfull \hbox (badness 5119) in paragraph at lines 488--492 []\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 492--497 [][][]\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 522--522 []\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 524--524 []\T1/pcr/m/n/9 s2 <- bandSparse(13, k = c(0:2, 6), diag = c(diags, diags[2]) , symm=TRUE)[] [2345] Overfull \hbox (15.18042pt too wide) in paragraph at lines 533--533 []\T1/pcr/m/n/9 lLis <- lapply(list(rpois(20, 2), rpois(20,1), rpois(20,3))[c( 1:3,2:3,3:2)],[] [2346] Overfull \hbox (52.98038pt too wide) in paragraph at lines 647--647 []\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:[] Overfull \hbox (96.18033pt too wide) in paragraph at lines 648--648 []\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 649--649 []\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}"}.[] [2347] Overfull \hbox (31.3804pt too wide) in paragraph at lines 662--662 [] \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 663--663 [] \T1/pcr/m/n/9 i = as.vector(matrix(0L:(M-1L), nrow=k)[, rep(seq_len( N), each=k)]),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 668--668 []\T1/pcr/m/n/9 l12 <- replicate(12, matrix(rpois(16, lambda = 6.4), 4,4), sim plify=FALSE)[] [2348] Underfull \hbox (badness 1874) in paragraph at lines 737--740 []\T1/ptm/m/n/10 The orig-i-nal LA-PACK source code, in-clud-ing doc-u-men-ta-t ion; [][]$\T1/pcr/m/n/10 https : / / netlib . org / [2349] [2350] Underfull \hbox (badness 1107) in paragraph at lines 859--864 \T1/ptm/m/n/10 sity'' of []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/ 10 y[]\T1/ptm/m/n/10 , see e.g., the \T1/phv/m/n/10 R \T1/ptm/m/n/10 code in [] \T1/pcr/m/n/10 selectMethod(cbind2, Underfull \hbox (badness 10000) in paragraph at lines 890--895 []\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: [2351] Overfull \hbox (72.78088pt too wide) in paragraph at lines 954--954 []\T1/pcr/m/n/10 ## solve(a, b, system = c("A","LDLt","LD","DLt","L","Lt","D ","P","Pt"), ...)[] [2352] Underfull \hbox (badness 3612) in paragraph at lines 1041--1044 []\T1/pcr/m/n/10 signature(from = "CHMfactor", to = "pMatrix") []\T1/ptm/m/n/10 re-turns the per-mu-ta-tion [2353]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cho l}) has been already used, duplicate ignored \relax l.1141 ...- 'Matrix' S4 Generic and Methods}{chol} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.chol.1}) has been already used, duplic ate ignored \relax l.1141 ...- 'Matrix' S4 Generic and Methods}{chol} [2354] [2355] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1288--1288 []\T1/pcr/m/n/9 ## --> see Cholesky() and its examples, for the pivot structur e & factorization[] [2356] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1383--1383 []\T1/pcr/m/n/10 Cholesky(A, perm = TRUE, LDL = !super, super = FALSE, Imult = 0, ...) Underfull \hbox (badness 2277) in paragraph at lines 1411--1414 []\T1/ptm/m/n/10 This is a generic func-tion with spe-cial meth-ods for dif-fer -ent types of ma-tri-ces. Use [2357] [2358] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1485--1485 []\T1/pcr/m/n/9 ## hence, the identical() check *should* work, but fails on so me GOTOblas:[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1499--1499 []\T1/pcr/m/n/9 dq <- function(ch) paste(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 "\TS1/p cr/m/n/9 '\T1/pcr/m/n/9 ,ch,\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 "\TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 , sep="") ## dQuote() gives bad plots[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 1507--1507 []\T1/pcr/m/n/9 (opts <- expand.grid(perm = c(TRUE,FALSE), LDL = c(TRUE,FALSE) , super = c(FALSE,TRUE)))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1516--1516 []\T1/pcr/m/n/9 str(re <- lapply(rr, expand), max.level=2) ## each has a \TS1/ pcr/m/n/9 '\T1/pcr/m/n/9 P\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and a \TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 L\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 matrix[] [2359] Underfull \hbox (badness 10000) in paragraph at lines 1552--1559 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 new("Cholesky", ...) []\T1/ptm/m/n/10 or Underfull \hbox (badness 4673) in paragraph at lines 1552--1559 []\T1/pcr/m/n/10 new("BunchKaufman", ...)[]\T1/ptm/m/n/10 , etc, or rather by c alls of the form [][][]\T1/pcr/m/n/10 chol[][][](pm) []\T1/ptm/m/n/10 or Underfull \hbox (badness 1783) in paragraph at lines 1587--1591 []\T1/ptm/m/n/10 Both these fac-tor-iza-tions can \T1/ptm/m/it/10 di-rectly \T1 /ptm/m/n/10 be treated as (tri-an-gu-lar) ma-tri-ces, as they ex-tend Underfull \hbox (badness 1221) in paragraph at lines 1603--1609 \T1/ptm/m/n/10 ply an $\OML/cmm/m/it/10 n \OMS/cmsy/m/n/10 ^^B \OML/cmm/m/it/10 n$ \T1/ptm/m/n/10 nu-meric [][][]\T1/pcr/m/n/10 matrix[][][][]\T1/ptm/m/n/10 . Hence, for com-pat-i-bil-ity, the []\T1/pcr/m/n/10 "Cholesky" []\T1/ptm/m/n/10 and [2360]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.col Sums}) has been already used, duplicate ignored \relax l.1644 ... Row and Column Sums and Means}{colSums} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.colSums.1}) has been already used, dup licate ignored \relax l.1644 ... Row and Column Sums and Means}{colSums} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.colMeans}) has been already used, dupl icate ignored \relax l.1645 \aliasA{colMeans}{colSums}{colMeans} pdfTeX warning (ext4): destination w ith the same identifier (name{Rfn.rowMeans}) has been already used, duplicate i gnored \relax l.1658 \aliasA{rowMeans}{colSums}{rowMeans} pdfTeX warning (ext4): destination w ith the same identifier (name{Rfn.rowSums}) has been already used, duplicate ig nored \relax l.1665 \aliasA{rowSums}{colSums}{rowSums} [2361] Underfull \hbox (badness 2922) in paragraph at lines 1715--1719 []\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 1715--1719 \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 1726--1729 [][][]\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 [2362] [2363] Underfull \hbox (badness 3547) in paragraph at lines 1880--1883 []\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 [2364] [2365] [2366] [2367] [2368] Underfull \hbox (badness 7379) in paragraph at lines 2383--2385 []\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 [2369] [2370] [2371] Underfull \hbox (badness 4846) in paragraph at lines 2608--2612 []\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 2613--2617 []\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 Underfull \hbox (badness 10000) in paragraph at lines 2620--2623 []\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 dgCMatrix[][][] []\T1/ptm/m/n/10 or the su-per-classes [][][]\T1/pcr/m/n/10 dsparseMatrix[][][] []\T1/ptm/m/n/10 a nd [][][]\T1/pcr/m/n/10 TsparseMatrix[][][][]\T1/ptm/m/n/10 ; [2372] Underfull \hbox (badness 5231) in paragraph at lines 2657--2662 []\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 2668--2668 []\T1/pcr/m/n/10 .sparseDiagonal(n, x = NULL, uplo = "U", shape = "t", unitri = TRUE, kind, cols)[] [2373] Underfull \hbox (badness 10000) in paragraph at lines 2724--2727 []\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 2724--2727 []\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- [2374] Underfull \hbox (badness 3646) in paragraph at lines 2821--2824 []\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 2856--2860 []\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 2865--2871 []\T1/pcr/m/n/10 signature(e1 = "ddiMatrix", e2="denseMatrix")[]\T1/ptm/m/n/10 : the re-sult is from class [2375] Underfull \hbox (badness 10000) in paragraph at lines 2872--2876 []\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 2882--2886 [][][]\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 [2376] [2377] [2378] Underfull \hbox (badness 10000) in paragraph at lines 3136--3138 []\T1/pcr/m/n/10 signature(x = "dMatrix", digits = "numeric")[]\T1/ptm/m/n/10 : this group con-tains [2379] [2380] Overfull \hbox (69.18036pt too wide) in paragraph at lines 3276--3276 []\T1/pcr/m/n/9 stopifnot(all.equal(S9p0, S9p))# same as as default, but diffe rent from the random one[] [2381] Underfull \hbox (badness 2469) in paragraph at lines 3386--3389 []\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 [2382] Underfull \hbox (badness 10000) in paragraph at lines 3409--3414 []\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 3409--3414 [][][]\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 3415--3424 \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 3415--3424 \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", [2383] Underfull \hbox (badness 10000) in paragraph at lines 3541--3545 []\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 3541--3545 []\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 , [2384] Underfull \hbox (badness 1571) in paragraph at lines 3591--3594 []\T1/pcr/m/n/10 signature(x = "dsCMatrix", pivot = "logical")[]\T1/ptm/m/n/10 : Re-turns (and stores) the [2385] [2386] Underfull \hbox (badness 10000) in paragraph at lines 3739--3744 []\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 Underfull \hbox (badness 6961) in paragraph at lines 3739--3744 \T1/ptm/m/n/10 class []\T1/pcr/m/n/10 "dsparseMatrix" []\T1/ptm/m/n/10 or []\T1 /pcr/m/n/10 "RsparseMatrix"[]\T1/ptm/m/n/10 ; class []\T1/pcr/m/n/10 "compMatri x" []\T1/ptm/m/n/10 by class Underfull \hbox (badness 1400) in paragraph at lines 3751--3754 []\T1/pcr/m/n/10 signature(x = "dsRMatrix", uplo = "character")[]\T1/ptm/m/n/10 : if []\T1/pcr/m/n/10 uplo == [2387] Underfull \hbox (badness 10000) in paragraph at lines 3802--3804 []\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 3838--3841 []\T1/pcr/m/n/10 signature(x = "dspMatrix", type = "character")[]\T1/ptm/m/n/10 , or []\T1/pcr/m/n/10 x = "dsyMatrix" [2388] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3883--3883 []\T1/pcr/m/n/9 stopifnot(all(S1 == S2)) # equal "seen as matrix", but differ internally :[] [2389] [2390] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3989--3989 []\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 4043--4047 []\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 4052--4055 []\T1/pcr/m/n/10 signature(x = "dtpMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : Ma-trix mul-ti-pli-ca-tion; [2391] Underfull \hbox (badness 10000) in paragraph at lines 4055--4059 []\T1/pcr/m/n/10 signature(x = "dtpMatrix", logarithm = "logical")[]\T1/ptm/m/n /10 : the [2392] [2393] Underfull \hbox (badness 2065) in paragraph at lines 4224--4228 []\T1/pcr/m/n/10 signature(a = "dtrMatrix", b = "....")[]\T1/ptm/m/n/10 efficie ntely use a ``for-ward-solve'' or [2394] [2395] [2396] [2397] Overfull \hbox (112.38031pt too wide) in paragraph at lines 4481--4481 []\T1/pcr/m/n/9 str(jgl009 <- ## https://math.nist.gov/MatrixMarket/data/Harwe ll-Boeing/counterx/counterx.html[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 4488--4488 [] \T1/pcr/m/n/9 readHB(gzcon(url("https://www.cise.ufl.edu/research/sparse/RB /Boeing/msc00726.tar.gz"))))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4492--4492 []\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 4495--4495 []\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)[] Overfull \hbox (58.38037pt too wide) in paragraph at lines 4505--4505 []\T1/pcr/m/n/9 ## has columns (i, j, x) -> we can use via do.call() as argume nts to sparseMatrix():[] [2398] [2399] [2400] Underfull \hbox (badness 2237) in paragraph at lines 4683--4688 []\T1/ptm/m/n/10 a string ([]\T1/pcr/m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n /10 "R"[]\T1/ptm/m/n/10 , or []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 ) spec-i-fy-i ng the stor-age of the re-sult as Underfull \hbox (badness 10000) in paragraph at lines 4701--4703 []\T1/ptm/m/n/10 a string, one of []\T1/pcr/m/n/10 "trace", "sumLog", "prod", " min", "max", [2401] [2402] [2403] [2404] Underfull \hbox (badness 10000) in paragraph at lines 5033--5038 []\T1/ptm/m/n/10 Classes [][][]\T1/pcr/m/n/10 compMatrix[][][][]\T1/ptm/m/n/10 , and the non-general vir-tual classes: [][][]\T1/pcr/m/n/10 symmetricMatrix[][ ][][]\T1/ptm/m/n/10 , [2405] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5114--5114 []\T1/pcr/m/n/9 if(isTRUE(try(require(graph)))) { ## super careful .. for "che cking reasons" [2406] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5116--5116 [] \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 5120--5120 [] \T1/pcr/m/n/9 show(a2 <- sparseMatrix(i= c(1:4,4), j=c(2:4,1:2), x = TRUE, dimnames=dns))[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5127--5127 [] \T1/pcr/m/n/9 a. <- sparseMatrix(i= 4:1, j=1:4, dimnames=list(n4,n4), give C=FALSE) # no \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 x\TS1/pcr/m/n/9 '[] [2407] [2408] Underfull \hbox (badness 4120) in paragraph at lines 5266--5269 []\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 5284--5284 []\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 5304--5304 []\T1/pcr/m/n/9 ## Using (xlim,ylim) has advantage : matrix dimension and (col /row) indices:[] [2409] Overfull \hbox (36.7804pt too wide) in paragraph at lines 5310--5310 [] \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 5311--5311 [] \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 5315--5315 []\T1/pcr/m/n/9 image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd=3, bor der.col = adjustcolor("skyblue", 1/2))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5323--5323 []\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 5326--5326 [] \T1/pcr/m/n/9 ## and now look at the *.png image in a viewer you can easi ly zoom in and out[] [2410] Underfull \hbox (badness 1817) in paragraph at lines 5420--5429 []\T1/ptm/m/n/10 While ``row-indexing'' (of more than one row \T1/ptm/m/it/10 o r \T1/ptm/m/n/10 us-ing []\T1/pcr/m/n/10 drop=FALSE[]\T1/ptm/m/n/10 ) stays wit hin the Underfull \hbox (badness 10000) in paragraph at lines 5462--5464 []\T1/pcr/m/n/10 signature(x = "matrix", y = "indMatrix") []\T1/ptm/m/n/10 and other sig-na-tures (use Underfull \hbox (badness 7081) in paragraph at lines 5464--5467 []\T1/pcr/m/n/10 signature(from = "integer", to = "indMatrix")[]\T1/ptm/m/n/10 : This en-ables typ-i-cal [2411] Underfull \hbox (badness 4556) in paragraph at lines 5470--5477 []\T1/pcr/m/n/10 signature(from = "list", to = "indMatrix")[]\T1/ptm/m/n/10 : T he list must have two Underfull \hbox (badness 3302) in paragraph at lines 5488--5491 []\T1/pcr/m/n/10 signature(X = "indMatrix", Y = "indMatrix")[]\T1/ptm/m/n/10 : re-turn the kro-necker [2412] [2413] [2414] [2415] Overfull \hbox (138.78088pt too wide) in paragraph at lines 5872--5872 []\T1/pcr/m/n/10 isSymmetric(object, tol = 100 * .Machine$double.eps, tol1 = 8 * tol, checkDN = TRUE, ...)[] [2416] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5878--5878 []\T1/pcr/m/n/10 isSymmetric(object, tol = 100 * .Machine$double.eps, checkDN = TRUE, ...)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5937--5937 []\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 5941--5941 []\T1/pcr/m/n/9 showMethods("isSymmetric", includeDefs = TRUE) # includes S3 g eneric from base[] [2417] Overfull \hbox (31.3804pt too wide) in paragraph at lines 6033--6033 []\T1/pcr/m/n/9 isTriangular(as(M, "generalMatrix")) # still triangular, even if not "formally"[] [2418] Overfull \hbox (18.78088pt too wide) in paragraph at lines 6058--6058 []\T1/pcr/m/n/10 KhatriRao(X, Y = X, FUN = "*", sparseY = TRUE, make.dimnames = FALSE) [2419] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6138--6138 []\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 6139--6139 [] \T1/pcr/m/n/9 all(K2 <- KhatriRao(zm, nd) == 0), identical(dim(K2) , c(12L, 4L)))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6146--6146 [] \T1/pcr/m/n/9 identical(dimnames(KhatriRao(m, d0, make.dimnames=TRUE)), di mnames(Kmd)))[] [2420] [2421] Underfull \hbox (badness 1062) in paragraph at lines 6307--6310 []\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 [2422] Underfull \hbox (badness 6063) in paragraph at lines 6333--6336 []\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 [2423] Underfull \hbox (badness 2635) in paragraph at lines 6478--6483 []\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 6478--6483 \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 6486--6489 []\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., [2424] Underfull \hbox (badness 10000) in paragraph at lines 6553--6563 []\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 6553--6563 [][][]\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 [2425] Underfull \hbox (badness 3179) in paragraph at lines 6635--6638 []\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 [2426] Underfull \hbox (badness 10000) in paragraph at lines 6720--6723 []\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., [2427] Underfull \hbox (badness 10000) in paragraph at lines 6781--6784 []\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., [2428] Underfull \hbox (badness 1430) in paragraph at lines 6855--6861 \T1/ptm/m/n/10 should be sig-nalled when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is sin-gu-lar. When []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is sin-gu-lar, []\T1/pcr/ m/n/10 lu(x, Underfull \hbox (badness 1675) in paragraph at lines 6880--6883 []\T1/pcr/m/n/10 lu() []\T1/ptm/m/n/10 is a generic func-tion with spe-cial met h-ods for dif-fer-ent types of ma-tri-ces. Use [2429] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6952--6952 [] \T1/pcr/m/n/9 # q is a 0-based permutation o f the columns[] [2430] [2431] Underfull \hbox (badness 10000) in paragraph at lines 7092--7095 []\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 7114--7116 []\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) [2432] [2433] [2434]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.det}) has been already used, duplicate ignored \relax l.7305 \aliasA{det}{Matrix-class}{det} Underfull \hbox (badness 1337) in paragraph at lines 7393--7396 []\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 7406--7409 [2435] Underfull \hbox (badness 10000) in paragraph at lines 7415--7417 []\T1/pcr/m/n/10 signature(from = "ANY", to = "Matrix")[]\T1/ptm/m/n/10 : This re-lies on a cor-rect [2436]pdfTeX warning (ext4): destination with the same identifier (name{Rfn..Rp cent.*.Rpcent.}) has been already used, duplicate ignored \relax l.7478 ...*\%}{matrix-products}{.Rpcent.*.Rpcent.} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.crossprod}) has been already used, dup licate ignored \relax l.7575 ...A{crossprod}{matrix-products}{crossprod} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.tcrossprod}) has been already used, du plicate ignored \relax l.7676 ...tcrossprod}{matrix-products}{tcrossprod} Underfull \hbox (badness 1881) in paragraph at lines 7777--7783 \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 [2437] Underfull \hbox (badness 10000) in paragraph at lines 7850--7853 []\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 7853--7858 []\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 7853--7858 []\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 7858--7862 \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 7868--7869 []\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and other sig-na- [2438] [2439] Underfull \hbox (badness 1062) in paragraph at lines 8043--8046 []\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 [2440] Underfull \hbox (badness 6063) in paragraph at lines 8075--8078 []\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 [2441] Underfull \hbox (badness 3312) in paragraph at lines 8131--8133 []\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 <- [2442] [2443] Overfull \hbox (85.38034pt too wide) in paragraph at lines 8233--8233 [] \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 8273--8273 []\T1/pcr/m/n/9 stopifnot(all.equal(ncr, ncF))# norm type does not matter at a ll in this example[] Underfull \vbox (badness 10000) has occurred while \output is active [2444] Underfull \hbox (badness 2635) in paragraph at lines 8329--8334 []\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 8329--8334 \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 8337--8340 []\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., [2445] Underfull \hbox (badness 2521) in paragraph at lines 8406--8412 []\T1/pcr/m/n/10 signature(from = "matrix", to = "nMatrix")[]\T1/ptm/m/n/10 : N ote that these co-er-cions [2446] Underfull \hbox (badness 1867) in paragraph at lines 8517--8519 []\T1/ptm/m/n/10 fast sim- [2447]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.nor m}) has been already used, duplicate ignored \relax l.8557 \HeaderA{norm}{Matrix Norms}{norm} pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.norm.1}) has been already used, duplicate ignor ed \relax l.8557 \HeaderA{norm}{Matrix Norms}{norm} [2448] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8650--8650 []\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 8651--8651 []\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 8652--8652 []\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 8708--8718 []\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 , [2449] Underfull \hbox (badness 3179) in paragraph at lines 8779--8782 []\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 [2450] Underfull \hbox (badness 10000) in paragraph at lines 8859--8862 []\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., [2451] Underfull \hbox (badness 10000) in paragraph at lines 8923--8926 []\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., [2452] [2453] Underfull \hbox (badness 10000) in paragraph at lines 9018--9019 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "missing", dr op = Underfull \hbox (badness 10000) in paragraph at lines 9019--9020 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "missing", drop = Underfull \hbox (badness 10000) in paragraph at lines 9020--9021 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "missing", drop = Underfull \hbox (badness 10000) in paragraph at lines 9021--9022 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "missing", dro p = Underfull \hbox (badness 10000) in paragraph at lines 9022--9023 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "missing", dr op = Underfull \hbox (badness 10000) in paragraph at lines 9023--9024 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9024--9025 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9025--9026 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9026--9027 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9027--9028 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9028--9029 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9029--9030 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9030--9031 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9031--9032 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9032--9033 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9033--9034 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "missing", dr op = Underfull \hbox (badness 10000) in paragraph at lines 9034--9035 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "missing", drop = Underfull \hbox (badness 10000) in paragraph at lines 9035--9036 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "missing", drop = Underfull \hbox (badness 10000) in paragraph at lines 9036--9037 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "missing", dro p = Underfull \hbox (badness 10000) in paragraph at lines 9037--9038 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "missing", dr op = [2454] Underfull \hbox (badness 10000) in paragraph at lines 9038--9039 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9039--9040 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9040--9041 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9041--9042 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9042--9043 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9043--9044 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9044--9045 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9045--9046 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9046--9047 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9047--9048 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "index", drop = [2455] Underfull \hbox (badness 10000) in paragraph at lines 9137--9139 []\T1/pcr/m/n/10 signature(x = "matrix", y = "pMatrix") []\T1/ptm/m/n/10 and ot her sig-na-tures (use Underfull \hbox (badness 5008) in paragraph at lines 9139--9142 []\T1/pcr/m/n/10 signature(from = "integer", to = "pMatrix")[]\T1/ptm/m/n/10 : This is en-ables typ-i-cal Underfull \hbox (badness 1558) in paragraph at lines 9145--9149 []\T1/pcr/m/n/10 signature(x = "pMatrix", logarithm="logical")[]\T1/ptm/m/n/10 : Since per-mu-ta- Underfull \hbox (badness 3229) in paragraph at lines 9149--9153 \T1/ptm/m/n/10 trix; note that []\T1/pcr/m/n/10 solve(P) []\T1/ptm/m/n/10 is id en-ti-cal to []\T1/pcr/m/n/10 t(P) []\T1/ptm/m/n/10 for per-mu-ta-tion ma-tri-c es. See [2456] [2457] Overfull \hbox (36.78088pt too wide) in paragraph at lines 9228--9228 [] \T1/pcr/m/n/10 col.names, note.dropping.colnames = TRUE, uniD iag = TRUE,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9231--9231 []\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 9233--9233 [] \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln ames = TRUE,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 9237--9237 []\T1/pcr/m/n/10 printSpMatrix2(x, digits = NULL, maxp = max(100L, getOption(" max.print")),[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9238--9238 [] \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln ames = TRUE,[] Underfull \hbox (badness 3989) in paragraph at lines 9263--9273 []\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 9263--9273 \T1/ptm/m/n/10 be printed, pos-si-bly ab-bre-vi-ated. The de-fault is taken fro m [2458] [2459]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.qr}) has been already used, duplicate ignored \relax l.9364 \aliasA{qr}{qr-methods}{qr} [2460] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9436--9436 []\T1/pcr/m/n/9 stopifnot(identical(dimnames(X), dnX))# some versions changed X\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s dimnames![] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9447--9447 []\T1/pcr/m/n/9 qxrLA <- qr(m(Xr), LAPACK=TRUE) # => qr.fitted(), qr.resid() n ot supported[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 9466--9466 []\T1/pcr/m/n/9 ##----- rank-deficient ("singular") case --------------------- ---------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9474--9474 []\T1/pcr/m/n/9 (X. <- drop0(Q. %*% R.[, qI], tol=tolE))## just = X, incl. cor rect colnames[] Underfull \vbox (badness 10000) has occurred while \output is active [2461] Underfull \hbox (badness 2005) in paragraph at lines 9531--9537 []\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 9548--9551 []\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 [2462] [2463] Overfull \hbox (85.38034pt too wide) in paragraph at lines 9647--9647 []\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 9663--9663 []\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 9669--9669 []\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 9670--9670 []\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.9688 ... the Reciprocal Condition Number}{rcond} [2464] [2465] Overfull \hbox (20.58041pt too wide) in paragraph at lines 9806--9806 []\T1/pcr/m/n/9 rcond(x2 <- cbind(x1, 2:11))# practically 0, since x2 does not have full rank[] [2466] [2467] [2468] Underfull \hbox (badness 2150) in paragraph at lines 9997--10005 \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 [2469] [2470] Underfull \hbox (badness 1558) in paragraph at lines 10137--10140 []\T1/ptm/m/n/10 numeric square Ma-trix (in-her-it-ing from class []\T1/pcr/m/n /10 "Matrix"[]\T1/ptm/m/n/10 ) or tra-di-tional [2471] Overfull \hbox (52.98038pt too wide) in paragraph at lines 10199--10199 [] \T1/pcr/m/n/9 z[order(Mod(z), decreasing=TRUE)]}) , tolerance = 1e-13),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 10203--10203 []\T1/pcr/m/n/9 ## For the faint of heart, we provide Schur() also for traditi onal matrices:[] [2472]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.sol ve}) has been already used, duplicate ignored \relax l.10265 \aliasA{solve}{solve-methods}{solve} Overfull \hbox (48.78088pt too wide) in paragraph at lines 10367--10367 []\T1/pcr/m/n/10 ## solve(a, b, ...) # the two-argument version, almost always preferred to Overfull \hbox (90.78088pt too wide) in paragraph at lines 10379--10379 []\T1/pcr/m/n/10 solve(a, b, system = c("A", "LDLt", "LD", "DLt", "L", "Lt", " D", "P", "Pt"), ...)[] [2473] Underfull \hbox (badness 1616) in paragraph at lines 10414--10426 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 solve []\T1/ptm/m/n/10 meth-ods for a Underfull \hbox (badness 10000) in paragraph at lines 10431--10434 []\T1/ptm/m/n/10 (for all []\T1/pcr/m/n/10 b[]\T1/ptm/m/n/10 ) work via []\T1/p cr/m/n/10 as(a, Underfull \hbox (badness 10000) in paragraph at lines 10440--10447 []\T1/ptm/m/n/10 with ex-tra ar-gu-ment list []\T1/pcr/m/n/10 ( Underfull \hbox (badness 10000) in paragraph at lines 10453--10463 []\T1/ptm/m/n/10 with ex-tra ar-gu-ment list []\T1/pcr/m/n/10 ( Underfull \hbox (badness 3657) in paragraph at lines 10453--10463 \T1/pcr/m/n/10 sparse=FALSE, tol = .Machine$double.eps ) []\T1/ptm/m/n/10 : Che cks if []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 is sym-met-ric, [2474] Underfull \hbox (badness 6032) in paragraph at lines 10480--10484 []\T1/ptm/m/n/10 All these meth-ods first try Cholmod's Underfull \hbox (badness 10000) in paragraph at lines 10487--10489 []\T1/ptm/m/n/10 all end up call-ing LA-PACK rou-tines Underfull \hbox (badness 10000) in paragraph at lines 10510--10511 []\T1/ptm/m/n/10 works via []\T1/pcr/m/n/10 as(b, Underfull \hbox (badness 10000) in paragraph at lines 10516--10518 []\T1/ptm/m/n/10 these meth-ods typ-i-cally use Underfull \hbox (badness 10000) in paragraph at lines 10520--10521 []\T1/ptm/m/n/10 all work via []\T1/pcr/m/n/10 as(a, Underfull \hbox (badness 10000) in paragraph at lines 10528--10531 [][][]\T1/pcr/m/n/10 solve[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lu[][][ ][]\T1/ptm/m/n/10 , and class doc-u-men-ta-tions [][][]\T1/pcr/m/n/10 CHMfactor [][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 sparseLU[][][][]\T1/ptm/m/n/10 , and Overfull \hbox (4.38043pt too wide) in paragraph at lines 10547--10547 []\T1/pcr/m/n/9 image(ia0 <- solve(a)) # checker board, dense [but really, a i s singular!][] Overfull \hbox (25.98041pt too wide) in paragraph at lines 10551--10551 [] \T1/pcr/m/n/9 ## Fails on 32-bit [Fedora 19, R 3.0.2] from Matrix 1.1-0 on [FIXME ??] only[] [2475] Underfull \hbox (badness 10000) in paragraph at lines 10572--10575 []\T1/ptm/m/n/10 Construct a sparse model or ``de-sign'' ma-trix, from a for-mu la and data frame Overfull \hbox (6.78088pt too wide) in paragraph at lines 10589--10589 [] \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveCs parse)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10591--10591 [] \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveCs parse,[] Underfull \hbox (badness 1648) in paragraph at lines 10600--10602 []\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 10608--10611 []\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 10608--10611 []\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 [2476] Underfull \hbox (badness 10000) in paragraph at lines 10619--10623 []\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 10619--10623 []\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 Underfull \hbox (badness 1668) in paragraph at lines 10634--10639 [][][]\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 [2477] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10714--10714 [] \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 10715--10715 [] \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 10716--10716 [] \T1/pcr/m/n/9 is(M <- fac2sparse(f12, drop= TRUE),"CsparseMatrix"), dim(M) == c(0,12),[] [2478] Overfull \hbox (85.38034pt too wide) in paragraph at lines 10816--10816 []\T1/pcr/m/n/9 stopifnot(all.equal(pA, pLU, tolerance = 1e-12)) # (incl. perm uted row- and column-names)[] [2479] Underfull \hbox (badness 10000) in paragraph at lines 10897--10899 []\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 10904--10904 [] \T1/pcr/m/n/10 symmetric = FALSE, triangular = FALSE, index1 = TRUE,[] [2480] Underfull \hbox (badness 2261) in paragraph at lines 10942--10948 \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 [2481] Underfull \hbox (badness 10000) in paragraph at lines 11031--11034 []\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 11043--11043 []\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 11047--11047 []\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 11048--11048 []\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 11053--11053 []\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 11056--11056 []\T1/pcr/m/n/9 ## i, j and x can be in an arbitrary order, as long as they ar e consistent[] [2482] Overfull \hbox (15.18042pt too wide) in paragraph at lines 11079--11079 []\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 11080--11080 []\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 11106--11106 []\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 11108--11108 [] \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 11110--11110 [] \T1/pcr/m/n/9 XX <- sparseMatrix(j = X@ja, p = X@ia - 1L, x = X@ra, dims = X@dimension)[] Underfull \vbox (badness 10000) has occurred while \output is active [2483] Underfull \hbox (badness 6842) in paragraph at lines 11207--11210 []\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 [2484] Underfull \hbox (badness 10000) in paragraph at lines 11242--11246 [][][]\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 pdfTeX warning (ext4): destination with the same identifier (name{Rfn.qr.Q}) ha s been already used, duplicate ignored \relax l.11282 \aliasA{qr.Q}{sparseQR-class}{qr.Q} [2485] [2486] Underfull \hbox (badness 10000) in paragraph at lines 11411--11413 []\T1/pcr/m/n/10 signature(a = "sparseQR", b = "ANY")[]\T1/ptm/m/n/10 : For []\ T1/pcr/m/n/10 solve(a,b)[]\T1/ptm/m/n/10 , sim-ply uses Overfull \hbox (58.38037pt too wide) in paragraph at lines 11439--11439 [] \T1/pcr/m/n/9 qc <- qr.coef (qrm, y); qc. <- qr.coef (qrm, y.) # 2nd fai led in Matrix <= 1.1-0[] [2487] Underfull \hbox (badness 5036) in paragraph at lines 11467--11469 []\T1/ptm/m/n/10 vector of the non zero en-tries; may be miss-ing in which case a Underfull \hbox (badness 2970) in paragraph at lines 11578--11584 []\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 11578--11584 \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 , [2488] Underfull \hbox (badness 10000) in paragraph at lines 11629--11632 []\T1/pcr/m/n/10 signature(x = "sparseVector", mode = "character") []\T1/ptm/m/ n/10 co-erces sparse [2489] Underfull \hbox (badness 10000) in paragraph at lines 11669--11674 []\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 11684--11686 [][][]\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(*, [2490] [2491] Underfull \hbox (badness 2310) in paragraph at lines 11809--11815 [][][]\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, [2492] [2493] Underfull \hbox (badness 2591) in paragraph at lines 11923--11928 \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 Underfull \hbox (badness 2057) in paragraph at lines 11999--12001 []\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., [2494] [2495] Underfull \hbox (badness 6641) in paragraph at lines 12086--12089 []\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 12131--12135 []\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 12131--12135 \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 [2496] [2497] Underfull \hbox (badness 7649) in paragraph at lines 12238--12240 []\T1/ptm/m/n/10 a sparse ma-trix stored in triplet form, i.e., in-her-it-ing f rom class [2498] [2499] Underfull \hbox (badness 10000) in paragraph at lines 12356--12358 []\T1/ptm/m/n/10 typically a []\T1/pcr/m/n/10 "packedMatrix"[]\T1/ptm/m/n/10 , though [2500] Underfull \hbox (badness 1668) in paragraph at lines 12485--12488 [][][]\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 [2501] Underfull \hbox (badness 7362) in paragraph at lines 12536--12538 []\T1/ptm/m/n/10 any \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject, co-er-ca-ble to a sparse ma-trix (i.e., of sub-class of [2502] Overfull \hbox (15.18042pt too wide) in paragraph at lines 12574--12574 []\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 12575--12575 []\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)[] [2503] [2504] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12729--12729 [] \T1/pcr/m/n/9 sapply(rho, function(x) c(2* determinant(update(C1, nWC, 1/ x))$modulus))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12734--12734 [] \T1/pcr/m/n/9 sapply(rho, function(x) c(2* determinant(update(C2, nWC, 1/ x))$modulus))[] [2505] Underfull \hbox (badness 6910) in paragraph at lines 12940--12942 []\T1/ptm/m/n/10 is cur-rently a sim-ple fall-back [2506] Package hyperref Warning: Glyph not defined in PU encoding, (hyperref) removing `\Rpercent' on input line 12987. Package hyperref Warning: Glyph not defined in PU encoding, (hyperref) removing `\Rpercent' on input line 12987. [2507] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13117--13117 []\T1/pcr/m/n/9 L. <- L; L.[1:2,1] <- TRUE; L.@x[1:2] <- FALSE; L. # has "zero s" to drop0()[] [2508]) (./boot-pkg.tex Chapter 18. [2509] [2510] [2511] [2512] [2513] [2514] [2515] 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"), [2516] 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- [2517] [2518] [2519] 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 , [2520] 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 [2521] [2522] [2523] 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 [2524] [2525] [2526] [2527] 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- [2528] [2529] [2530] [2531] [2532] 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), [2533] [2534] [2535] Underfull \vbox (badness 10000) has occurred while \output is active [2536] 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),[] [2537] 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. [2538] [2539] [2540] 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 [2541] 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 , [2542] [2543] 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 [2544] [2545] [2546] [2547] [2548] 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,[] [2549] [2550] [2551] 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 , [2552] 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)) [2553] [2554] [2555] 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 [2556] [2557] [2558] [2559] [2560] [2561] [2562] 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)[] [2563] [2564] 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])[] [2565] [2566] [2567] [2568] 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 [2569] [2570] 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 [2571] [2572] [2573] [2574] [2575] [2576] [2577] [2578] [2579] 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 [2580] [2581] [2582] [2583] 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 [2584] 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])[] [2585] [2586] [2587] [2588] [2589] [2590] [2591] [2592] 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][] [2593] 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 [2594] 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 [2595] [2596] [2597] [2598] 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). [2599] [2600] 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[] [2601] [2602] [2603] 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 [2604] [2605] 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),[] [2606] [2607] [2608] [2609] [2610] [2611] [2612] [2613]) (./class-pkg.tex [2614] Chapter 19. [2615] [2616] [2617] [2618] [2619] [2620] [2621] [2622] [2623] [2624] [2625] [2626] [2627] [2628] [2629] [2630]) (./cluster-pkg.tex Chapter 20. [2631] [2632] [2633] 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]))[] [2634] [2635] Underfull \vbox (badness 10000) has occurred while \output is active [2636] [2637] 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, ...)[] [2638] [2639] 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)[] [2640] Underfull \hbox (badness 3078) in paragraph at lines 691--694 []\T1/ptm/m/n/10 Setting this to []\T1/pcr/m/n/10 FALSE []\T1/ptm/m/n/10 saves mem-ory (and hence time), but dis-ables [2641] [2642] Underfull \hbox (badness 2941) in paragraph at lines 791--794 [][][]\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 , [2643] Overfull \hbox (9.78043pt too wide) in paragraph at lines 834--834 []\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 881--883 []\T1/ptm/m/n/10 list with sil-hou-ette width in-for-ma-tion for the best sam-p le, see [2644] Overfull \hbox (24.78088pt too wide) in paragraph at lines 946--946 [] \T1/pcr/m/n/10 arrowArgs = list(col="red3", length=1/16, angle=90, code =3), ...)[] [2645] 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, [2646] [2647] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1121--1121 [] \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 1138--1138 []\T1/pcr/m/n/9 ## You can manually set it before running this : doExtras < - TRUE # or FALSE[] Underfull \vbox (badness 10000) has occurred while \output is active [2648] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1176--1176 []\T1/pcr/m/n/9 plot(gsP.Z, main = "clusGap() ==> k = 1 clust er is optimal")[] Underfull \hbox (badness 4144) in paragraph at lines 1208--1212 []\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 [2649] Overfull \hbox (60.78088pt too wide) in paragraph at lines 1284--1284 [] \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 1290--1290 [] \T1/pcr/m/n/10 round(100 * var.dec, digits = 2), "% of the poin t variability."),[] [2650] [2651] [2652] Underfull \hbox (badness 10000) in paragraph at lines 1477--1480 Underfull \hbox (badness 10000) in paragraph at lines 1494--1498 [][][]\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 1518--1518 []\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 1528--1528 [] \T1/pcr/m/n/9 clusplot(votes.diss, votes.clus, diss = TRUE, labels = 5)# i dent. only points[] [2653] Underfull \hbox (badness 5741) in paragraph at lines 1568--1571 []\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 [2654] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1637--1637 [] \T1/pcr/m/n/10 warnBin = warnType, warnAsym = warnType, warnConst = wa rnType,[] [2655] Underfull \hbox (badness 1552) in paragraph at lines 1686--1688 []\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 1699--1703 []\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 1699--1703 \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 [2656] Underfull \hbox (badness 1540) in paragraph at lines 1775--1783 \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 = [2657] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1867--1867 []\T1/pcr/m/n/9 summary(dfl2 <- daisy(flower, type = list(asymm = c(1, 3), ord ratio = 7)))[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 1886--1886 []\T1/pcr/m/n/10 diana(x, diss = inherits(x, "dist"), metric = "euclidean", st and = FALSE, [2658] [2659] [2660] [2661] [2662] Underfull \hbox (badness 10000) in paragraph at lines 2207--2210 Underfull \hbox (badness 3179) in paragraph at lines 2221--2227 [][][]\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. [2663] [2664] Underfull \hbox (badness 10000) in paragraph at lines 2379--2382 [][][]\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 , [2665] Underfull \hbox (badness 1292) in paragraph at lines 2447--2450 []\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 [2666] Underfull \hbox (badness 6675) in paragraph at lines 2456--2458 []\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 2479--2482 [][][]\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 , [2667] [2668] Overfull \hbox (48.78088pt too wide) in paragraph at lines 2608--2608 []\T1/pcr/m/n/10 medoids(x, clustering, diss = inherits(x, "dist"), USE.NAMES = FALSE, ...) [2669] Overfull \hbox (69.18036pt too wide) in paragraph at lines 2655--2655 [] \T1/pcr/m/n/9 stopifnot(length(cl.k) == nrow(votes.repub), 1 <= cl.k, cl.k <= k, table(cl.k) >= 2)[] [2670] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2760--2760 []\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 ):[] [2671] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2839--2839 [] \T1/pcr/m/n/10 variant = c("original", "o_1", "o_2", "f_3", "f_4", "f_5" , "faster"),[] [2672] [2673] [2674] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3068--3068 []\T1/pcr/m/n/9 ## no _build_ *and* no _swap_ phase: just cluster all obs. aro und (1, 16):[] [2675] [2676] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3171--3171 []\T1/pcr/m/n/9 axis(1, k.best, paste("best",k.best,sep="\n"), col = "red", co l.axis = "red")[] [2677] [2678] [2679] Overfull \hbox (78.78088pt too wide) in paragraph at lines 3367--3367 [] \T1/pcr/m/n/10 sub = paste("Agglomerative Coefficient = ",round(x $ac, digits = 2)),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3368--3368 [] \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty = TRUE, ...)[] [2680] Underfull \hbox (badness 10000) in paragraph at lines 3435--3438 []\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 <- [2681] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3485--3485 [] \T1/pcr/m/n/10 sub = paste("Divisive Coefficient = ", round(x$dc, digits = 2)),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3486--3486 [] \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty = TRUE, ...)[] [2682] [2683] [2684] Underfull \hbox (badness 10000) in paragraph at lines 3671--3674 []\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 3671--3674 \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 [2685] Underfull \hbox (badness 10000) in paragraph at lines 3734--3739 [][][]\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 , [2686] Underfull \hbox (badness 1748) in paragraph at lines 3796--3801 \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 3808--3811 [][][]\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 , [2687] [2688] [2689] Underfull \hbox (badness 10000) in paragraph at lines 3993--3996 [][][]\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 , Underfull \hbox (badness 10000) in paragraph at lines 4024--4027 [][][]\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 , [2690] Overfull \hbox (36.78088pt too wide) in paragraph at lines 4077--4077 [] \T1/pcr/m/n/10 digits = getOption("digits"), justify = "none", right = TRUE, ...)[] [2691] Underfull \hbox (badness 2035) in paragraph at lines 4088--4090 []\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 [2692] [2693] [2694] Overfull \hbox (54.78088pt too wide) in paragraph at lines 4281--4281 [] \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 4283--4283 [] \T1/pcr/m/n/10 cex.names = par("cex.axis"), do.n.k = TRUE, do.clus.stat = TRUE, ...)[] [2695] [2696] Overfull \hbox (31.3804pt too wide) in paragraph at lines 4426--4426 []\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 4435--4435 [] \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 4437--4437 [] \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 4440--4440 []\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 4442--4442 [] \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k), do.n.k=FALSE,[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 4449--4449 []\T1/pcr/m/n/9 str(xc1k <- xclara[ sample(nrow(xclara), size = 1000) ,]) # ro wnames == indices[] [2697] [2698] [2699] [2700] [2701] [2702] [2703] Underfull \hbox (badness 10000) in paragraph at lines 4823--4829 []\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 4839--4841 []\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 4852--4852 []\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 4854--4854 []\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 4864--4864 [] \T1/pcr/m/n/9 ## We see 3 + 2 + 2 = 7 clear "outlier"s or "wrong group" o bservations:[] [2704] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4868--4868 [] \T1/pcr/m/n/9 ## Apart from these, what are the robust ranges of indices? - - Robust range:[] [2705]) (./codetools-pkg.tex [2706] 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,[] [2707] 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 [2708] 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,[] [2709] [2710] [2711]) (./foreign-pkg.tex [2712] 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 Data Underfull \hbox (badness 10000) in paragraph at lines 33--37 \T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able as [][]$\T1/p cr/m/n/10 https : / / support . Underfull \hbox (badness 10000) in paragraph at lines 33--37 \T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap ers / 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 . [2713] 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 [2714] [2715] Underfull \hbox (badness 3601) in paragraph at lines 237--245 []\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 , [2716] Overfull \hbox (12.78088pt too wide) in paragraph at lines 295--295 []\T1/pcr/m/n/10 read.epiinfo(file, read.deleted = FALSE, guess.broken.dates = FALSE, [2717] [2718] [2719] Overfull \hbox (48.78088pt too wide) in paragraph at lines 461--461 [] \T1/pcr/m/n/10 trim_values = TRUE, reencode = NA, use.missings = t o.data.frame,[] [2720] Overfull \hbox (30.78088pt too wide) in paragraph at lines 462--462 [] \T1/pcr/m/n/10 sub = ".", add.undeclared.levels = c("sort", "appen d", "no"),[] Underfull \hbox (badness 2846) in paragraph at lines 505--514 []\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 505--514 \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 505--514 \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 515--518 []\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 515--518 \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 [2721] Underfull \hbox (badness 10000) in paragraph at lines 549--557 []\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 567--573 []\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 [2722] Overfull \hbox (20.58041pt too wide) in paragraph at lines 622--622 []\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 623--623 []\T1/pcr/m/n/9 ### Expect lots of warnings as value labels (corresponding to R factor labels) are uncomplete,[] [2723] Overfull \hbox (9.78043pt too wide) in paragraph at lines 656--656 []\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 660--660 []\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 667--667 []\T1/pcr/m/n/9 long.string <- apply(x[,c("string_500", "STRIN0")], 1, paste, collapse="")[] [2724] [2725] Underfull \hbox (badness 10000) in paragraph at lines 811--812 Overfull \hbox (4.38043pt too wide) in paragraph at lines 821--821 []\T1/pcr/m/n/9 iris.s <- read.systat(system.file("files/Iris.syd", package="f oreign")[1])[] [2726] Underfull \hbox (badness 10000) in paragraph at lines 868--872 []\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o ut of a Data Underfull \hbox (badness 10000) in paragraph at lines 868--872 \T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able at [][]$\T1/p cr/m/n/10 https : / / support . Underfull \hbox (badness 10000) in paragraph at lines 868--872 \T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap ers / Overfull \hbox (74.28088pt too wide) in paragraph at lines 868--872 \T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s et-[]in-[]sas-[]transport-[]xport-[]format . [2727] Overfull \hbox (24.78088pt too wide) in paragraph at lines 899--899 [] \T1/pcr/m/n/10 data.restore(file, print = FALSE, verbose = FALSE, env = .G lobalEnv) [2728] Overfull \hbox (0.78088pt too wide) in paragraph at lines 963--963 []\T1/pcr/m/n/10 write.arff(x, file, eol = "\n", relation = deparse(substitute (x))) [2729] [2730] Underfull \hbox (badness 10000) in paragraph at lines 1075--1076 [][][]$\T1/pcr/m/n/10 https : / / www . clicketyclick . dk / databases / xbase / format / data _ types . Overfull \hbox (24.78088pt too wide) in paragraph at lines 1111--1111 [] \T1/pcr/m/n/10 convert.factors = c("labels", "string", "numeric", "codes"))[] [2731] [2732] Underfull \hbox (badness 10000) in paragraph at lines 1268--1274 []\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 , [2733] Underfull \hbox (badness 2088) in paragraph at lines 1294--1297 []\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 [2734]) (./lattice-pkg.tex Chapter 23. [2735] Underfull \hbox (badness 2073) in paragraph at lines 117--121 \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 117--121 \T1/pcr/m/n/10 web / 20081020164041 / http : / / cm . bell-[]labs . com / cm / ms / departments / sia / [2736] [2737] Overfull \hbox (12.78088pt too wide) in paragraph at lines 286--286 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 290--290 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .xyplot"),[] [2738] Overfull \hbox (42.78088pt too wide) in paragraph at lines 298--298 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defaul t.dotplot"),[] Overfull \hbox (54.78088pt too wide) in paragraph at lines 305--305 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau lt.barchart"),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 313--313 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa ult.stripplot"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 334--334 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 338--338 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .bwplot"),[] [2739] [2740] [2741] [2742] Underfull \hbox (badness 1221) in paragraph at lines 652--655 []\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 [2743] [2744] [2745] [2746] Underfull \hbox (badness 2005) in paragraph at lines 990--1002 []\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 990--1002 \T1/ptm/m/n/10 some-times ap-pro-pri-ate to sup-press drop-ping to pre-serve a use-ful lay-out. [2747] Underfull \hbox (badness 1661) in paragraph at lines 1103--1109 []\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 [2748] [2749] Underfull \hbox (badness 1097) in paragraph at lines 1229--1231 []\T1/ptm/m/n/10 Logical flag, whether leg-end should have a Underfull \hbox (badness 1917) in paragraph at lines 1243--1244 []\T1/ptm/m/n/10 Space be-tween col-umn blocks, in ad-di-tion to [2750] [2751] [2752] Underfull \hbox (badness 1540) in paragraph at lines 1483--1489 []\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 , [2753] Underfull \hbox (badness 10000) in paragraph at lines 1570--1587 [][][]\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 , [2754] Overfull \hbox (36.7804pt too wide) in paragraph at lines 1658--1658 [] \T1/pcr/m/n/9 text = list(lab = as.character(unique(Orchar dSprays$rowpos))),[] [2755] Underfull \hbox (badness 2012) in paragraph at lines 1712--1714 []\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 1742--1746 []\T1/ptm/m/n/10 graphical ar-gu-ments, which are pro-cessed and even-tu-ally p assed to [2756] Underfull \hbox (badness 10000) in paragraph at lines 1759--1762 []\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 Underfull \hbox (badness 10000) in paragraph at lines 1812--1814 []\T1/ptm/m/n/10 Gabor Grothendieck, Achim Zeileis, Deep-ayan Sarkar and Fe-lix An-drews [2757] [2758] [2759] [2760] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2045--2045 [] \T1/pcr/m/n/10 auto.key = lattice.getOption("default.args")$auto .key,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2058--2058 [] \T1/pcr/m/n/10 lattice.getOption("prepanel.default.densitypl ot"),[] [2761] Underfull \hbox (badness 10000) in paragraph at lines 2128--2131 []\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 2128--2131 []\T1/pcr/m/n/10 lattice.getOption("histogram.breaks") []\T1/ptm/m/n/10 is firs t checked. If [2762] [2763] [2764] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2332--2332 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2336--2336 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .qqmath"),[] [2765] [2766] [2767] [2768] Overfull \hbox (60.78088pt too wide) in paragraph at lines 2676--2676 [] \T1/pcr/m/n/10 panel = if (useRaster) lattice.getOption("panel.lev elplot.raster")[] [2769] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2708--2708 [] \T1/pcr/m/n/10 lattice.getOption("prepanel.default.contourpl ot"),[] Underfull \vbox (badness 10000) has occurred while \output is active [2770] Underfull \hbox (badness 2913) in paragraph at lines 2778--2783 []\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 2778--2783 []\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 [2771] [2772] Underfull \hbox (badness 6758) in paragraph at lines 2906--2910 []\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 2906--2910 \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 2912--2914 []\T1/ptm/m/n/10 Logical flag, passed to [][][]\T1/pcr/m/n/10 rasterGrob[][][] []\T1/ptm/m/n/10 when Underfull \hbox (badness 1609) in paragraph at lines 2964--2970 []\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 2964--2970 \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 2964--2970 \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 2988--2992 []\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 [2773] [2774] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3091--3091 [] \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 3092--3092 [] \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 3093--3093 [] \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 3104--3104 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default. cloud"),[] [2775] Overfull \hbox (66.78088pt too wide) in paragraph at lines 3116--3116 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa ult.wireframe"),[] Underfull \hbox (badness 2913) in paragraph at lines 3174--3181 []\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 3174--3181 []\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 [2776] [2777] [2778] [2779]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.parallel}) has been already used, duplicate ignored \relax l.3462 \aliasA{parallel}{B\_08\_splom}{parallel} [2780] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3504--3504 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default. splom"),[] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3527--3527 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau lt.parallel"),[] [2781] [2782] [2783] [2784] [2785] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3863--3863 []\T1/pcr/m/n/10 oneway(formula, data, location=mean, spread=function(x) sqrt( var(x))) [2786] Underfull \hbox (badness 2277) in paragraph at lines 3949--3953 []\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 3949--3953 \T1/ptm/m/n/10 For back-compatibility, this is ini-tially (when lat-tice is loa ded) set to [2787] [2788] Overfull \hbox (120.78088pt too wide) in paragraph at lines 4046--4046 [] \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 4048--4048 [] \T1/pcr/m/n/10 region = hcl.colors(14, palette = "YlGnBu", re v = TRUE),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 4055--4055 [] \T1/pcr/m/n/10 reference = "gray90", bg = "transparent", fg = " black",[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 4056--4056 [] \T1/pcr/m/n/10 strip.bg = rep("gray95", 7), strip.fg = rep("gra y70", 7),[] [2789] [2790] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4199--4199 []\T1/pcr/m/n/10 trellis.par.set(name, value, ..., theme, warn = TRUE, strict = FALSE) Underfull \hbox (badness 1173) in paragraph at lines 4208--4212 []\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 Underfull \hbox (badness 3219) in paragraph at lines 4235--4237 []\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 4252--4256 []\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 [2791] Underfull \hbox (badness 5161) in paragraph at lines 4317--4321 []\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 4317--4321 \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 [2792] [2793] Underfull \hbox (badness 1067) in paragraph at lines 4435--4445 []\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 4435--4445 []\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 4435--4445 []\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 4435--4445 []\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 4435--4445 []\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 Underfull \hbox (badness 1701) in paragraph at lines 4460--4463 []\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 4463--4465 []\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 [2794] [2795] Underfull \hbox (badness 2932) in paragraph at lines 4606--4611 []\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 , [2796] [2797] [2798] [2799] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4882--4882 []\T1/pcr/m/n/9 p12 <- densityplot( ~ height | voice.part, data = singer, xlab = "Height")[] [2800] [2801] [2802] Underfull \hbox (badness 10000) in paragraph at lines 5069--5072 []\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 . [2803] Underfull \hbox (badness 1442) in paragraph at lines 5201--5204 []\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 [2804] [2805] [2806] [2807] [2808] [2809] Underfull \hbox (badness 3646) in paragraph at lines 5540--5543 [][][]\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 5570--5570 [] \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 5571--5571 [] \T1/pcr/m/n/10 fg = trellis.par.get("strip.shingle")$col[which .given],[] [2810] Underfull \hbox (badness 10000) in paragraph at lines 5659--5662 []\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 5659--5662 []\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 [2811] Underfull \hbox (badness 1635) in paragraph at lines 5685--5690 []\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 [2812] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5836--5836 []\T1/pcr/m/n/10 panel.identify.qqmath(x, distribution, groups, subscripts, la bels,[] [2813] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5850--5850 []\T1/pcr/m/n/10 panel.link.splom(threshold = 18, verbose = getOption("verbose "), ...)[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5851--5851 []\T1/pcr/m/n/10 panel.brush.splom(threshold = 18, verbose = getOption("verbos e"), ...)[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5854--5854 []\T1/pcr/m/n/10 trellis.vpname(name = c("position", "split", "split.location" , "toplevel",[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5857--5857 [] \T1/pcr/m/n/10 "xlab", "ylab", "xlab.top", "ylab.rig ht", "page"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 5859--5859 [] \T1/pcr/m/n/10 side = c("left", "top", "right", "bottom", "in side"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5865--5865 [] \T1/pcr/m/n/10 which.given = lattice.getStatus("current.whi ch.given",[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5866--5866 [] \T1/pcr/m/n/10 prefix = pre fix),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5867--5867 [] \T1/pcr/m/n/10 which.panel = lattice.getStatus("current.whi ch.panel",[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5868--5868 [] \T1/pcr/m/n/10 prefix = pre fix),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5869--5869 [] \T1/pcr/m/n/10 column = lattice.getStatus("current.focus.co lumn",[] Underfull \hbox (badness 10000) in paragraph at lines 5885--5887 []\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 5896--5898 []\T1/ptm/m/n/10 an op-tional vec-tor of la-bels as-so-ci-ated with each point. De-faults to [2814] [2815] Underfull \hbox (badness 2538) in paragraph at lines 6021--6025 \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 6032--6039 []\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 6032--6039 []\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 [2816] [2817] Underfull \hbox (badness 10000) in paragraph at lines 6185--6189 [][][]\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 , [2818] [2819] Underfull \hbox (badness 4242) in paragraph at lines 6332--6337 []\T1/ptm/m/n/10 Graphical pa-ram-e-ters for the bars. By de-fault, the trel-li s pa-ram-e- [2820] [2821] Underfull \hbox (badness 3601) in paragraph at lines 6448--6453 []\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 6448--6453 \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 [2822] Overfull \hbox (60.78088pt too wide) in paragraph at lines 6536--6536 [] \T1/pcr/m/n/10 shade.colors.palette = trellis.par.get("shade.co lors")$palette,[] [2823] [2824] [2825] Underfull \hbox (badness 10000) in paragraph at lines 6735--6739 []\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 6740--6742 []\T1/ptm/m/n/10 numeric, be-tween 0 and 1, giv-ing a min-i-mum sat-u-ra-tion i n [2826] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6836--6836 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Inferno"),[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6839--6839 [] \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 6842--6842 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Harmonic"),[] [2827] [2828] [2829] [2830] [2831] [2832] Underfull \hbox (badness 1320) in paragraph at lines 7204--7211 []\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 7204--7211 \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 [2833] Overfull \hbox (0.78088pt too wide) in paragraph at lines 7279--7279 [] \T1/pcr/m/n/10 varname = NULL, limits, at = NULL, labels = NULL,[] [2834] Underfull \hbox (badness 10000) in paragraph at lines 7309--7313 []\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 7309--7313 []\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 [2835] Underfull \hbox (badness 10000) in paragraph at lines 7414--7417 \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 7439--7439 [] \T1/pcr/m/n/9 function(i,j) hcl.colors(11)[i+j-1]) ## rainbow( 11, start=.12, end=.5)[i+j-1])[] [2836] [2837] Underfull \hbox (badness 2012) in paragraph at lines 7580--7583 []\T1/ptm/m/n/10 Further ar-gu-ments, of-ten graph-i-cal pa-ram-e-ters, even-tu -ally passed on to [2838] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7626--7626 [] \T1/pcr/m/n/9 panel.qqmath(..., f.value = ppoints(100), ta ils.n = 50))[] [2839] [2840] [2841] Underfull \hbox (badness 1939) in paragraph at lines 7815--7823 []\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 7815--7823 \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 Underfull \hbox (badness 2772) in paragraph at lines 7838--7841 []\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 [2842] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7909--7909 [] \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 7919--7919 [] \T1/pcr/m/n/9 scales = list(alternating = c(0, 2), tck = c(0, 0.7), d raw = FALSE),[] [2843] Overfull \hbox (12.78088pt too wide) in paragraph at lines 7980--7980 [] \T1/pcr/m/n/10 font, fontfamily, fontface, cex, ..., identifier, nam e.type)[] Overfull \hbox (72.78088pt too wide) in paragraph at lines 7985--7985 [] \T1/pcr/m/n/10 adj = c(0.5, 0.5), pos = NULL, offset = 0.5, ..., ident ifier, name.type)[] [2844] [2845] [2846] Overfull \hbox (66.78088pt too wide) in paragraph at lines 8170--8170 []\T1/pcr/m/n/10 panel.grid(h=3, v=3, col, col.line, lty, lwd, x, y, ..., iden tifier = "grid")[] [2847] Underfull \hbox (badness 1436) in paragraph at lines 8225--8231 []\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 [2848] Overfull \hbox (42.18039pt too wide) in paragraph at lines 8355--8355 [] \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 8369--8369 [] \T1/pcr/m/n/9 args = list(mean = mean(x), sd = sd(x)), ...)[] [2849] [2850] [2851] [2852] [2853] [2854] [2855] Underfull \hbox (badness 10000) in paragraph at lines 8794--8797 []\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 8794--8797 []\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 [2856] [2857] Overfull \hbox (24.78088pt too wide) in paragraph at lines 8969--8969 []\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 8970--8970 []\T1/pcr/m/n/10 prepanel.default.histogram(x, breaks, equal.widths, type, nin t, ...)[] [2858] Overfull \hbox (30.78088pt too wide) in paragraph at lines 8982--8982 []\T1/pcr/m/n/10 prepanel.default.densityplot(x, darg, groups, weights, subscr ipts, ...)[] Underfull \hbox (badness 3118) in paragraph at lines 9001--9004 []\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 [2859] Underfull \hbox (badness 1515) in paragraph at lines 9077--9081 []\T1/ptm/m/n/10 numeric vec-tor of length two, rep-re-sent-ing prob-a-bil-i-ti es. If used with [2860] [2861] Underfull \hbox (badness 6316) in paragraph at lines 9183--9188 []\T1/ptm/m/n/10 which packet (counted ac-cord-ing to the packet or-der, de-scr ibed in [2862] Overfull \hbox (47.58038pt too wide) in paragraph at lines 9293--9293 [] \T1/pcr/m/n/9 ans$bottom$labels$labels <- parse(text = ans$b ottom$labels$labels)[] [2863] [2864] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9432--9432 []\T1/pcr/m/n/9 xyplot(sunspot.year ~ time(sunspot.year) | equal.count(time(su nspot.year)),[] [2865] Underfull \hbox (badness 1028) in paragraph at lines 9491--9495 \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, [2866] [2867] [2868] [2869] [2870] [2871] [2872] Underfull \hbox (badness 7238) in paragraph at lines 9955--9959 []\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 9955--9959 []\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 , [2873] [2874] [2875]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.melanoma}) has been already used, duplicate ignored \relax l.10186 \aliasA{melanoma}{H\_melanoma}{melanoma} [2876] [2877] [2878] Underfull \hbox (badness 10000) in paragraph at lines 10348--10353 \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 10421--10421 [] \T1/pcr/m/n/9 par.settings = simpleTheme(pch = 16), auto.key = list( columns = 2),[] [2879] [2880]) (./mgcv-pkg.tex Chapter 24. [2881] [2882] 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,[] [2883] Overfull \hbox (72.78088pt 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 184--188 \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 209--214 \T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known scale. [2884] [2885] [2886] [2887] Underfull \hbox (badness 10000) in paragraph at lines 379--386 [][][]\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 379--386 [][][]\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 379--386 [][][]\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 , [2888] Overfull \hbox (4.38043pt too wide) in paragraph at lines 422--422 []\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)+[] [2889] [2890] [2891] Underfull \hbox (badness 2922) in paragraph at lines 634--635 []\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 [2892] [2893] Underfull \hbox (badness 1406) in paragraph at lines 704--705 []\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 [2894] [2895] Underfull \hbox (badness 1158) in paragraph at lines 814--816 []\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 [2896] Underfull \hbox (badness 1259) in paragraph at lines 877--878 []\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). [2897] Underfull \vbox (badness 10000) has occurred while \output is active [2898] [2899] [2900] [2901] [2902] [2903] [2904] [2905] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1337--1337 []\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 1338--1338 []\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 1355--1355 [] \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 1367--1367 []\T1/pcr/m/n/9 bs <- gam(cbind(time,strata)~s(age,by=sex)+sex+s(nodes)+perfor +rx+obstruct[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1376--1376 []\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 1378--1378 [] \T1/pcr/m/n/9 lines(bs$family$data$tr[ind],exp(-bs$family$data$h[ind]) ,lwd=2,col=i)[] Underfull \vbox (badness 10000) has occurred while \output is active [2906] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1409--1409 []\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 [2907] [2908] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1492--1492 [] \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 1503--1503 [] \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 [2909] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1542--1542 []\T1/pcr/m/n/9 pd <- data.frame(lapply(X=di,FUN=app,t=di$day,to=te)) ## inter polate to te[] [2910] [2911] [2912] [2913] [2914] [2915] [2916] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1939--1939 []\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)[] [2917] [2918] [2919] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2164--2164 []\T1/pcr/m/n/10 fixDependence(X1,X2,tol=.Machine$double.eps^.5,rank.def=0,str ict=FALSE) [2920] [2921] [2922] [2923] [2924] [2925] [2926] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2569--2569 []\T1/pcr/m/n/10 gam(formula,family=gaussian(),data=list(),weights=NULL,subset =NULL,[] Underfull \hbox (badness 1728) in paragraph at lines 2581--2584 []\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 2594--2598 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [2927] Underfull \hbox (badness 1043) in paragraph at lines 2620--2626 \T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known scale. [2928] [2929] [2930] Underfull \hbox (badness 1043) in paragraph at lines 2789--2795 \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 [2931] [2932] Underfull \hbox (badness 10000) in paragraph at lines 2925--2931 [][][]\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 2925--2931 [][][]\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 2925--2931 [][][]\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 , [2933] Underfull \vbox (badness 10000) has occurred while \output is active [2934] Underfull \vbox (badness 10000) has occurred while \output is active [2935] [2936] [2937] Overfull \hbox (78.78088pt too wide) in paragraph at lines 3242--3242 []\T1/pcr/m/n/10 gam.control(nthreads=1,ncv.threads=1,irls.reg=0.0,epsilon = 1 e-07, maxit = 200, [2938] [2939] [2940] [2941] [2942] [2943] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3583--3583 [] \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 3586--3586 [] \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 3587--3587 [] \T1/pcr/m/n/10 pearson.extra=0,dev.extra=0,n.true=-1,Sl=NULL,nei=NU LL,...)[] [2944] [2945] [2946] [2947] [2948] [2949] [2950] [2951] Underfull \hbox (badness 5189) in paragraph at lines 4065--4069 []\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 [2952] [2953] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4182--4182 []\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 [2954] [2955] [2956] Underfull \hbox (badness 1184) in paragraph at lines 4352--4356 []\T1/ptm/m/n/10 list of the square root penal-ties: last en-try is root of fix ed penalty, if [2957] [2958] [2959] [2960] [2961] [2962] [2963] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4798--4798 [] \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)+[] [2964] [2965] [2966] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4948--4948 []\T1/pcr/m/n/10 gamlss.gH(X, jj, l1, l2, i2, l3 = 0, i3 = 0, l4 = 0, i4 = 0, d1b = 0, [2967] [2968] Underfull \hbox (badness 1142) in paragraph at lines 5075--5079 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [2969] Underfull \hbox (badness 10000) in paragraph at lines 5147--5156 []\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 [2970] [2971] Underfull \hbox (badness 5970) in paragraph at lines 5264--5270 [][][]\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 5264--5270 [][][]\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 . [2972] Underfull \vbox (badness 10000) has occurred while \output is active [2973] [2974] [2975] [2976] Underfull \hbox (badness 1577) in paragraph at lines 5614--5617 []\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 Underfull \hbox (badness 2181) in paragraph at lines 5621--5622 []\T1/ptm/m/n/10 one sided for-mula con-tain-ing vari-ables needed for pre-dic- tion, used by [2977] [2978] [2979] [2980] [2981] [2982] [2983] Underfull \hbox (badness 6708) in paragraph at lines 6009--6010 []\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 [2984] [2985] Overfull \hbox (58.38037pt too wide) in paragraph at lines 6058--6058 [] \T1/pcr/m/n/9 ## example using a scale location model for the motorcycle d ata. A simple plotting[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6083--6083 [] \T1/pcr/m/n/9 } else lines(xg,predict(din,xg)$y,col=lcol[j],lwd=lwd[j] ,lty=lty[j])[] [2986] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6112--6112 [] \T1/pcr/m/n/9 fv <- predict(b,se=TRUE) ## usual Gaussian approximation, fo r comparison[] [2987] [2988] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6234--6234 [] \T1/pcr/m/n/9 (1+exp(-10*(x[201:300]-.5)))-0.9933071) + z*(1-z)*5 + r norm(100)*.4[] [2989] [2990] [2991] [2992] [2993] Overfull \hbox (24.78088pt too wide) in paragraph at lines 6571--6571 []\T1/pcr/m/n/10 jagam(formula,family=gaussian,data=list(),file,weights=NULL,n a.action, [2994] Overfull \hbox (36.78088pt too wide) in paragraph at lines 6573--6573 []\T1/pcr/m/n/10 control=gam.control(),centred=TRUE,sp.prior = "gamma",diagona lize=FALSE)[] Underfull \hbox (badness 1142) in paragraph at lines 6594--6598 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [2995] [2996] [2997] Underfull \vbox (badness 10000) has occurred while \output is active [2998] [2999] [3000] Overfull \hbox (72.78088pt too wide) in paragraph at lines 6913--6913 []\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) [3001] [3002] [3003] [3004] Underfull \vbox (badness 10000) has occurred while \output is active [3005] Underfull \vbox (badness 10000) has occurred while \output is active [3006] [3007] [3008] Overfull \hbox (52.98038pt too wide) in paragraph at lines 7345--7345 []\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 7372--7372 [] \T1/pcr/m/n/10 .Machine$double.eps^0.5),extra.rss=0,n.score=length(y), nthreads=1)[] [3009] [3010] [3011] [3012] [3013] [3014] [3015] [3016] [3017] Underfull \hbox (badness 1242) in paragraph at lines 7915--7916 []\T1/ptm/m/n/10 Development of mgcv ver-sion 1.8 was part funded by EP-SRC gra nts EP/K005251/1 and [3018] [3019] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8002--8002 []\T1/pcr/m/n/9 ## Alternative, better scaling example, using the discrete opt ion with bam...[] [3020] [3021] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8065--8065 []\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 8084--8084 [] \T1/pcr/m/n/9 dat1[[dname[i]]][dat1[[by.name]]] <- mean(dat1[[dname[i]]] ,na.rm=TRUE)[] Underfull \vbox (badness 10000) has occurred while \output is active [3022] [3023] [3024] [3025] [3026] [3027] [3028] [3029] [3030] [3031] [3032] [3033] [3034] [3035] [3036] [3037] [3038] [3039] Underfull \vbox (badness 10000) has occurred while \output is active [3040] [3041] Underfull \hbox (badness 10000) in paragraph at lines 9309--9312 []\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 9309--9312 []\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 9309--9312 []\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 . [3042] Underfull \hbox (badness 10000) in paragraph at lines 9365--9368 []\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 9365--9368 []\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 [3043] [3044] [3045] Overfull \hbox (18.78088pt too wide) in paragraph at lines 9585--9585 []\T1/pcr/m/n/10 plot(x,residuals=FALSE,rug=NULL,se=TRUE,pages=0,select=NULL,s cale=-1,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9586--9586 [] \T1/pcr/m/n/10 n=100,n2=40,n3=3,pers=FALSE,theta=30,phi=30,jit=FALS E,xlab=NULL,[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 9589--9589 [] \T1/pcr/m/n/10 trans=I,seWithMean=FALSE,unconditional=FALSE,by.resi ds=FALSE,[] [3046] [3047] [3048] Underfull \hbox (badness 1629) in paragraph at lines 9747--9752 []\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 [3049] [3050] [3051] [3052] Overfull \hbox (84.78088pt too wide) in paragraph at lines 9959--9959 [] \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 9996--10000 []\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- [3053] [3054] [3055] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10129--10129 [] \T1/pcr/m/n/10 na.action=na.pass,unconditional=FALSE,iterms.type=NUL L,...)[] [3056] [3057] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10290--10290 []\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 10291--10291 []\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))[] [3058] Underfull \vbox (badness 10000) has occurred while \output is active [3059] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10410--10410 [] \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[] Underfull \vbox (badness 10000) has occurred while \output is active [3060] Underfull \hbox (badness 1205) in paragraph at lines 10448--10449 []\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 10448--10449 \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 10454--10459 []\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 [3061] Underfull \hbox (badness 1205) in paragraph at lines 10538--10539 []\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 10538--10539 \T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are as for [3062] Underfull \hbox (badness 10000) in paragraph at lines 10607--10610 []\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 10607--10610 [][][]\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, [3063] [3064] [3065] Underfull \hbox (badness 1253) in paragraph at lines 10737--10739 []\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, [3066] [3067] [3068] [3069] [3070] Underfull \hbox (badness 1946) in paragraph at lines 10990--10997 []\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 10990--10997 \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 10990--10997 \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 Underfull \hbox (badness 2846) in paragraph at lines 10998--11001 []\T1/ptm/m/n/10 Alternatively, but less straight-for-wardly, the []\T1/pcr/m/n /10 paraPen []\T1/ptm/m/n/10 ar-gu-ment to [][][]\T1/pcr/m/n/10 gam[][][] []\T1 /ptm/m/n/10 can be used: Underfull \hbox (badness 5862) in paragraph at lines 10998--11001 \T1/ptm/m/n/10 see [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/ptm/m/n/10 . If s mooth-ing pa-ram-e-ter es-ti-ma-tion is by ML or REML (e.g. [3071] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11064--11064 []\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 11074--11074 []\T1/pcr/m/n/9 ## The effect of the new factor levels (or any interaction inv olving them)[] [3072] Underfull \hbox (badness 10000) in paragraph at lines 11105--11108 []\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 , [3073] [3074] [3075] [3076] [3077] Overfull \hbox (36.78088pt too wide) in paragraph at lines 11407--11407 []\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) [3078] [3079] [3080] [3081] [3082] [3083] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11780--11780 [] \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 11794--11794 []\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 [3084] [3085] Underfull \hbox (badness 3861) in paragraph at lines 11896--11899 []\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 11905--11905 []\T1/pcr/m/n/10 Sl.initial.repara(Sl, X, inverse = FALSE, both.sides = TRUE, cov = TRUE,[] [3086] Underfull \hbox (badness 10000) in paragraph at lines 11922--11926 []\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 11962--11966 []\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- [3087] [3088] [3089] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12106--12106 [] \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 12117--12122 []\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 [3090] Underfull \hbox (badness 1803) in paragraph at lines 12194--12198 \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 12206--12218 []\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 [3091] Underfull \hbox (badness 2401) in paragraph at lines 12223--12227 []\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 12223--12227 \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 , [3092] [3093] [3094] Underfull \hbox (badness 6876) in paragraph at lines 12418--12424 [][][]\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 [3095] Underfull \hbox (badness 10000) in paragraph at lines 12459--12460 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3096] [3097] Underfull \hbox (badness 10000) in paragraph at lines 12577--12578 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3098] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12631--12631 [] \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))+[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12643--12643 [] \T1/pcr/m/n/9 ## now a model with first order penalty evaluated over (-.5, 1.5) (black)[] [3099] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12655--12655 [] \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 12660--12660 [] \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 12666--12666 [] \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 12667--12667 [] \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:[] [3100] Underfull \hbox (badness 10000) in paragraph at lines 12736--12738 []\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 12736--12738 \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 [3101] [3102] Underfull \hbox (badness 10000) in paragraph at lines 12866--12867 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3103] [3104] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12947--12947 []\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 12948--12948 []\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[] [3105] [3106] Underfull \hbox (badness 10000) in paragraph at lines 13101--13102 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3107] [3108] [3109] [3110] [3111] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13351--13351 []\T1/pcr/m/n/9 b <- gam(crime ~ s(district,bs="mrf",k=20,xt=xt),data=columb,m ethod="REML")[] [3112] Underfull \hbox (badness 10000) in paragraph at lines 13412--13414 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3113] [3114] Underfull \hbox (badness 10000) in paragraph at lines 13571--13574 []\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 13571--13574 \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 13571--13574 []\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" [3115] [3116] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13657--13657 []\T1/pcr/m/n/9 b <- c(rnorm(nb/2)*2,rnorm(nb/2)*.5) ## random effect now with 2 variances[] [3117] Underfull \hbox (badness 10000) in paragraph at lines 13702--13708 []\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 13702--13708 []\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- [3118] [3119] [3120] Overfull \hbox (36.7804pt too wide) in paragraph at lines 13916--13916 []\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 [3121] Underfull \vbox (badness 10000) has occurred while \output is active [3122] Underfull \hbox (badness 10000) in paragraph at lines 14019--14027 [][][]\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 14045--14046 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3123] [3124] [3125] Underfull \hbox (badness 7613) in paragraph at lines 14190--14193 []\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 [3126] Underfull \hbox (badness 1546) in paragraph at lines 14211--14212 []\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- Overfull \hbox (128.58029pt too wide) in paragraph at lines 14257--14257 []\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")[] [3127] [3128] [3129] Underfull \hbox (badness 3396) in paragraph at lines 14403--14406 [][][]\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 14448--14450 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3130] [3131] [3132] [3133] [3134] [3135] Underfull \hbox (badness 10000) in paragraph at lines 14739--14741 []\T1/pcr/m/n/10 bs="fs" []\T1/ptm/m/n/10 A spe-cial smoother class (see Underfull \hbox (badness 10000) in paragraph at lines 14769--14773 [][][]\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[][][] [][]tprs[][][][]\T1/ptm/m/n/10 ,[ ][][]\T1/pcr/m/n/10 Duchon.spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cubic.regression.spline[][][][]\T1/ptm/m/n/10 ,[][][]\T1/pcr/m/n/10 p.spline[][ ][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14769--14773 [][][]\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 14769--14773 [][][]\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 , [3136] [3137] [3138] [3139] [3140] Underfull \hbox (badness 2158) in paragraph at lines 15059--15059 []\T1/ptm/m/it/10 Extract smooth-ing pa-ram-e-ter es-ti-ma-tor co-vari-ance ma- trix from [3141] [3142] Overfull \hbox (48.78088pt too wide) in paragraph at lines 15138--15138 []\T1/pcr/m/n/10 spasm.sp(object,sp,w=rep(1,object$nobs),get.trH=TRUE,block=0, centre=FALSE)[] [3143] [3144] Overfull \hbox (12.78088pt too wide) in paragraph at lines 15272--15272 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars "),...)[] [3145] [3146] Underfull \hbox (badness 4846) in paragraph at lines 15403--15406 []\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 [3147] [3148] [3149] [3150] [3151] [3152] [3153] [3154] [3155] [3156] [3157] [3158] [3159] [3160] [3161] [3162] [3163] [3164] [3165] [3166] Overfull \hbox (120.78088pt too wide) in paragraph at lines 16621--16621 []\T1/pcr/m/n/10 vcov(object, sandwich=FALSE, freq = FALSE, dispersion = NULL, unconditional=FALSE, ...)[] [3167] Underfull \hbox (badness 1715) in paragraph at lines 16643--16644 []\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 [3168] [3169] [3170] Overfull \hbox (54.78088pt too wide) in paragraph at lines 16833--16833 []\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 16835--16835 []\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 16837--16837 []\T1/pcr/m/n/10 diagXVXd(X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,rt= NULL)[] [3171] Underfull \hbox (badness 10000) in paragraph at lines 16857--16858 []\T1/ptm/m/n/10 Negative to ig-nore. Oth-er-wise sum rows Underfull \hbox (badness 1668) in paragraph at lines 16857--16858 []\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 [3172] Underfull \vbox (badness 10000) has occurred while \output is active [3173] [3174] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17045--17045 []\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 17046--17046 []\T1/pcr/m/n/9 ## it is possible for the linear predictor to be almost unboun ded in regions[] [3175] Overfull \hbox (25.98041pt too wide) in paragraph at lines 17058--17058 []\T1/pcr/m/n/9 ## 3. Refit fixing the theta parameters at their estimated val ues, to check we[] [3176] [3177] [3178]) (./nlme-pkg.tex Chapter 25. [3179] Underfull \hbox (badness 1009) in paragraph at lines 84--93 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3180] Underfull \hbox (badness 1009) in paragraph at lines 174--183 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3181] [3182] [3183] [3184] [3185] Overfull \hbox (4.38043pt too wide) in paragraph at lines 454--454 [] \T1/pcr/m/n/9 lme(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres sure^4))*QB,[] [3186] [3187] Overfull \hbox (20.58041pt too wide) in paragraph at lines 595--595 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 251-254 --------------------------- ---------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 611--611 []\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 614--614 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 222-225 --------------------------- ---------------[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 621--621 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 352-365 --------------------------- ---------------[] [3188] [3189] [3190] [3191] [3192] [3193] [3194] [3195] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1085--1085 [] \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxil lary fissure"),[] [3196] Underfull \hbox (badness 5446) in paragraph at lines 1147--1149 []\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 [3197] [3198] [3199] [3200] [3201] [3202] [3203] Underfull \hbox (badness 10000) in paragraph at lines 1626--1629 [][][]\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 , [3204] Underfull \hbox (badness 3780) in paragraph at lines 1643--1645 []\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 [3205] [3206] [3207] [3208] [3209] Underfull \hbox (badness 2042) in paragraph at lines 1992--1998 \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 , [3210] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2054--2054 []\T1/pcr/m/n/9 collapse(Pixel, collapse = 1) # same as collapse(Pixel, colla pse = "Dog")[] [3211] Underfull \hbox (badness 1132) in paragraph at lines 2143--2145 []\T1/ptm/m/n/10 fitted model ob-jects, from which pre-dic-tions can be ex-trac ted us-ing the [3212] [3213] Underfull \hbox (badness 4168) in paragraph at lines 2254--2260 [][][]\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 , [3214] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2279--2279 [] \T1/pcr/m/n/9 gls(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres sure^4))*QB,[] [3215] [3216] [3217] [3218] [3219] [3220] [3221] [3222] Underfull \hbox (badness 10000) in paragraph at lines 2845--2849 [][][]\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 , [3223] [3224] [3225] [3226] [3227] [3228pdfTeX warning (ext4): destination with the same identifier (name{Rfn.corMatrix.corCompSymm}) has been already used, d uplicate ignored ...shipout:D \box_use:N \l_shipout_box l.3188 ...trix(cs1, covariate = 1:4, corr = FALSE) ] [3229] [3230] [3231] [3232] [3233] [3234] Underfull \hbox (badness 6493) in paragraph at lines 3580--3588 [][][]\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 , [3235] [3236] [3237] [3238] [3239] [3240] [3241] [3242] [3243] [3244] [3245] [3246] [3247] [3248] [3249] [3250] [3251] [3252] [3253] [3254] [3255] [3256] [3257] [3258] Underfull \hbox (badness 10000) in paragraph at lines 5160--5164 [][][]\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 , [3259] [3260] [3261] [3262] [3263] [3264] [3265] Underfull \hbox (badness 10000) in paragraph at lines 5592--5595 [][][]\T1/pcr/m/n/10 getGroupsFormula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n /10 getGroups.data.frame[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 getGroups .gls[][][][]\T1/ptm/m/n/10 , [3266] [3267] [3268] [3269] [3270] [3271] [3272] [3273] [3274] Underfull \hbox (badness 2799) in paragraph at lines 6098--6104 \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 [3275] Underfull \hbox (badness 7133) in paragraph at lines 6159--6163 []\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 , [3276] Underfull \hbox (badness 2057) in paragraph at lines 6248--6259 [][][]\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 , [3277] Underfull \hbox (badness 10000) in paragraph at lines 6312--6314 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3278] [3279] [3280] [3281] Underfull \hbox (badness 7133) in paragraph at lines 6560--6564 []\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 , [3282] Underfull \hbox (badness 10000) in paragraph at lines 6659--6665 [][][]\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 6686--6686 []\T1/pcr/m/n/10 gnlsControl(maxIter = 50, nlsMaxIter = 7, msMaxIter = 50, min Scale = 0.001, [3283] Underfull \hbox (badness 10000) in paragraph at lines 6724--6726 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3284] [3285] [3286] [3287] Underfull \hbox (badness 10000) in paragraph at lines 6995--7002 [][][]\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 , [3288] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7013--7013 [] \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxilla ry fissure" ),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7018--7018 []\T1/pcr/m/n/9 fm1 <- lme( Orth.new ) # fixed and groups formulae extracted from object[] Underfull \hbox (badness 2875) in paragraph at lines 7040--7042 []\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 [3289] [3290] [3291] Underfull \hbox (badness 10000) in paragraph at lines 7255--7260 [][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr /m/n/10 Initialize.lmeStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initi alize.glsStruct[][][][]\T1/ptm/m/n/10 , [3292] [3293] [3294] Underfull \hbox (badness 1997) in paragraph at lines 7406--7414 []\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 7406--7414 \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 7429--7432 [][][]\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 , [3295] [3296] [3297] Underfull \hbox (badness 3354) in paragraph at lines 7645--7647 []\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 [3298] [3299] [3300] [3301] [3302] [3303] [3304] [3305] Underfull \hbox (badness 10000) in paragraph at lines 8173--8190 [][][]\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 8173--8190 [][][]\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 , [3306] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8216--8216 [] \T1/pcr/m/n/10 subset, method, na.action, control, contrasts, keep.data = TRUE)[] Underfull \hbox (badness 1642) in paragraph at lines 8225--8247 []\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a one-sided for-mula o f the form [3307] [3308] [3309] [3310] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8490--8490 []\T1/pcr/m/n/10 lmeControl(maxIter = 50, msMaxIter = 50, tolerance = 1e-6, ni terEM = 25, [3311] Underfull \hbox (badness 10000) in paragraph at lines 8538--8540 []\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 8582--8582 []\T1/pcr/m/n/9 # request that information on the evolution of the ms iteratio ns be printed[] [3312] [3313] [3314] [3315] [3316] [3317] [3318] [3319] [3320] [3321] [3322] [3323] Underfull \hbox (badness 10000) in paragraph at lines 9345--9352 [][][]\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 9356--9356 []\T1/pcr/m/n/9 fm1 <- lme(distance ~ Sex * age, Orthodont, random = ~ age, me thod = "ML") [3324] [3325] [3326] [3327] [3328]pdfTeX warning (ext4): destination with the s ame identifier (name{Rfn.Matrix}) has been already used, duplicate ignored \relax l.9707 ...rA{Matrix}{Assign Matrix Values}{Matrix} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.Matrix.1}) has been already used, dupl icate ignored \relax l.9707 ...rA{Matrix}{Assign Matrix Values}{Matrix} [3329] Underfull \hbox (badness 10000) in paragraph at lines 9727--9730 []\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 9771--9774 []\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 9771--9774 \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 [3330] [3331] [3332] [3333] [3334] [3335] [3336] [3337] [3338] [3339] [3340] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10451--10451 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights, [3341] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10455--10455 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights,[] Underfull \hbox (badness 1596) in paragraph at lines 10484--10510 []\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a two-sided for-mula o f the form [3342] [3343] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10638--10638 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights,[] [3344] [3345] [3346] Overfull \hbox (36.78088pt too wide) in paragraph at lines 10789--10789 [] \T1/pcr/m/n/10 opt = c("nlminb", "nlm"), natural = TRUE, sigma = NULL, ...)[] Underfull \hbox (badness 2213) in paragraph at lines 10800--10805 []\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 10822--10826 []\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= [3347] Underfull \hbox (badness 10000) in paragraph at lines 10841--10843 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3348] [3349] [3350] [3351] Overfull \hbox (96.18033pt too wide) in paragraph at lines 11137--11137 []\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 11138--11138 []\T1/pcr/m/n/9 mat.class <- class(matrix(1)) # ("matrix", "array") for R >= 4 .0.0; ("matrix" in older R)[] [3352] [3353] [3354] [3355] [3356] [3357] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11528--11528 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo nt)), .. lme(*)) [3358] [3359] [3360] [3361] [3362] [3363] Underfull \hbox (badness 6268) in paragraph at lines 11915--11925 [][][]\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 , [3364] [3365] [3366] [3367] Underfull \hbox (badness 10000) in paragraph at lines 12176--12182 [][][]\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 , [3368] [3369] [3370] [3371] [3372] Underfull \hbox (badness 6876) in paragraph at lines 12498--12500 []\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 [3373] [3374] Underfull \hbox (badness 2452) in paragraph at lines 12654--12661 [][][]\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 , [3375] Underfull \hbox (badness 10000) in paragraph at lines 12720--12726 [][][]\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 , [3376] [3377] [3378] [3379] [3380] [3381] [3382] [3383] [3384] Overfull \hbox (25.98041pt too wide) in paragraph at lines 13309--13309 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo nt)), .. lme(*)) [3385] [3386] [3387] [3388] [3389] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13674--13674 []\T1/pcr/m/n/9 plot(fm1, resid(., type = "pool") ~ fitted(.) | Sex, abline = 0, id = 0.05)[] [3390] Underfull \hbox (badness 10000) in paragraph at lines 13701--13704 []\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 [3391] Underfull \hbox (badness 1838) in paragraph at lines 13744--13751 []\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 13744--13751 []\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 13801--13801 []\T1/pcr/m/n/10 plot(x, outer, inner, innerGroups, xlab, ylab, strip, aspect, panel,[] [3392] Underfull \hbox (badness 10000) in paragraph at lines 13808--13811 []\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 13808--13811 []\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 [3393] Underfull \hbox (badness 10000) in paragraph at lines 13916--13919 []\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 [3394] [3395] Underfull \hbox (badness 10000) in paragraph at lines 14010--14012 [][][]\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 , [3396] [3397] [3398] [3399] [3400] [3401] [3402] [3403] Overfull \hbox (20.58041pt too wide) in paragraph at lines 14534--14534 []\T1/pcr/m/n/9 newOrth <- data.frame(Sex = c("Male","Male","Female","Female", "Male","Male"),[] [3404] [3405] [3406] [3407] [3408] [3409] [3410] [3411] [3412]pdfTeX warning (e xt4): destination with the same identifier (name{Rfn.random.effects}) has been already used, duplicate ignored \relax l.15187 ...Extract Random Effects}{random.effects} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.random.effects.1}) has been already us ed, duplicate ignored \relax l.15187 ...Extract Random Effects}{random.effects} [3413] [3414] [3415] [3416] [3417] [3418] [3419] [3420] [3421] [3422] Underfull \hbox (badness 2126) in paragraph at lines 15826--15830 []\T1/ptm/m/n/10 Charles F. Minto, Thomas W. Schnider and Steven L. Shafer (199 7). Phar-ma-coki-net- [3423] Overfull \hbox (25.98041pt too wide) in paragraph at lines 15834--15834 []\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 Overfull \hbox (31.3804pt too wide) in paragraph at lines 15853--15853 [] \T1/pcr/m/n/9 stopifnot(all.equal(BSA, Wt^{0.425} * Ht^{0.725} * 0.00718 4, tol = 1.5e-5),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 15854--15854 [] \T1/pcr/m/n/9 all.equal(LBM, LBMfn(Wt, Ht, Sex), tol = 7e-7)[] [3424] Underfull \hbox (badness 1009) in paragraph at lines 15884--15893 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3425] [3426] Overfull \hbox (66.78088pt too wide) in paragraph at lines 16031--16031 [] \T1/pcr/m/n/10 type = c("response", "pearson", "normalized"), asLi st = FALSE, ...)[] [3427] [3428] [3429] [3430] [3431] Underfull \hbox (badness 10000) in paragraph at lines 16366--16372 [][][]\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 , [3432] Overfull \hbox (18.78088pt too wide) in paragraph at lines 16398--16398 [] \T1/pcr/m/n/10 method = c("REML", "ML"), niterEM = c(40, 200), useG en, ...)[] [3433] [3434] [3435] [3436] [3437] [3438] [3439] Underfull \hbox (badness 1728) in paragraph at lines 16885--16888 []\T1/ptm/m/n/10 an op-tional log-i-cal value used to con-trol the amount of ou t-put in the [3440] [3441] [3442] [3443] [3444] Underfull \hbox (badness 1803) in paragraph at lines 17219--17228 \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 17219--17228 \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 17219--17228 \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) [3445] Underfull \hbox (badness 10000) in paragraph at lines 17290--17291 []\T1/pcr/m/n/10 "Constant plus power of variance Underfull \hbox (badness 10000) in paragraph at lines 17291--17292 []\T1/pcr/m/n/10 "Constant plus proportion of variance [3446] [3447] [3448] [3449] Underfull \hbox (badness 10000) in paragraph at lines 17541--17549 [][][]\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 , [3450] [3451] [3452] [3453] Overfull \hbox (4.38043pt too wide) in paragraph at lines 17813--17813 []\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 17815--17815 []\T1/pcr/m/n/9 # overparameterisation in the case of a constant term in the v ariance function[] [3454] [3455] [3456] [3457] [3458] [3459] Underfull \hbox (badness 10000) in paragraph at lines 18251--18261 [][][]\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 18251--18261 [][][]\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 , [3460] Underfull \hbox (badness 3579) in paragraph at lines 18289--18294 \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 [3461] Underfull \hbox (badness 3579) in paragraph at lines 18353--18358 \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 [3462] Underfull \hbox (badness 3579) in paragraph at lines 18416--18421 \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 [3463] Underfull \hbox (badness 1577) in paragraph at lines 18477--18479 []\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 18479--18484 \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 [3464] Underfull \hbox (badness 3579) in paragraph at lines 18542--18547 \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 18575--18584 [][][]\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 18575--18584 [][][]\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 , [3465] Underfull \hbox (badness 3579) in paragraph at lines 18614--18619 \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 [3466] [3467] Underfull \hbox (badness 1009) in paragraph at lines 18760--18769 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3468] [3469] Underfull \hbox (badness 1009) in paragraph at lines 18892--18901 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3470] [3471] [3472] [3473] [3474] [3475] [3476] [3477] [3478]) (./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): destin ation with the same identifier (name{Rfn.multinom.1}) has been already used, du plicate ignored \relax l.47 ...t Multinomial Log-linear Models}{multinom} [3479] 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,[] [3480] [3481] [3482] Overfull \hbox (15.18042pt too wide) in paragraph at lines 371--371 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 2, rang = 0.1,[] [3483] Overfull \hbox (4.38043pt too wide) in paragraph at lines 428--428 []\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 431--431 []\T1/pcr/m/n/9 ir1 <- nnet(ir[samp,], targets[samp,], size=2, rang=0.1, decay =5e-4, maxit=200)[] [3484] [3485] Overfull \hbox (15.18042pt too wide) in paragraph at lines 511--511 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 2, rang = 0.1,[] [3486]) (./rpart-pkg.tex Chapter 27. [3487] [3488] [3489] [3490] 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, ...)[] [3491] [3492] [3493] [3494] 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 [3495] [3496] 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 [3497] [3498] [3499] 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"),[] [3500] [3501] [3502] [3503] 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 [3504] 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,[] [3505] [3506] [3507] [3508] [3509] [3510] [3511] 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 ', [3512] 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,[] [3513] [3514] [3515]) (./spatial-pkg.tex [3516] Chapter 28. [3517] [3518] [3519] [3520] [3521] [3522] Underfull \hbox (badness 10000) in paragraph at lines 423--427 [3523] [3524] [3525] [3526] [3527] [3528] [3529] [3530] [3531] [3532] [3533] [3534] [3535]) (./survival-pkg.tex [3536] Chapter 29. [3537] [3538] 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.[] [3539] [3540] 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 [3541] [3542]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): destin ation with the same identifier (name{Rfn.aml.1}) has been already used, duplica te ignored \relax l.384 ... Myelogenous Leukemia survival data}{aml} [3543] Overfull \hbox (9.78043pt too wide) in paragraph at lines 485--485 []\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 487--487 []\T1/pcr/m/n/9 fit2 <- coxph(Surv(futime, fustat) ~ resid.ds +rx + ecog.ps, d ata=ovarian)[] [3544] 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)[] [3545] [3546] [3547] [3548] Overfull \hbox (20.58041pt too wide) in paragraph at lines 773--773 []\T1/pcr/m/n/9 py <- pseudo(survfit(Surv(time, status) ~1, lung), time=730) # 2 year survival Overfull \hbox (48.78088pt too wide) in paragraph at lines 796--796 [] \T1/pcr/m/n/10 method =c("Prentice","SelfPrentice","LinYing","I.Borgan", "II.Borgan"),[] [3549] [3550] Overfull \hbox (9.78043pt too wide) in paragraph at lines 939--939 [] \T1/pcr/m/n/9 subcoh = ~subcohort, id=~seqno, stratum=~instit, cohort.siz e=stratsizes,[] [3551] [3552] [3553] Underfull \hbox (badness 1097) in paragraph at lines 1110--1112 []\T1/ptm/m/n/10 F.J. Anscombe (1949). Trans-for-ma-tions of Pois-son, bi-no-mi al and negative-binomial data. Overfull \hbox (4.38043pt too wide) in paragraph at lines 1130--1130 []\T1/pcr/m/n/9 ppois(4, 10.24153) #chance of seeing 4 or fewer events wit h large rate[] [3554] [3555] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1245--1245 []\T1/pcr/m/n/9 ## Not run: clogit(case ~ spontaneous + induced + strata(strat um), data=infert) [3556] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1306--1306 []\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.1312 ...erapy for Stage B/C colon cancer}{colon} [3557] Overfull \hbox (72.78088pt too wide) in paragraph at lines 1412--1412 [] \T1/pcr/m/n/10 influence=0, ranks = FALSE, reverse=FALSE, timefix=TRUE, ke epstrata=10, ...)[] [3558] [3559] [3560] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1638--1638 []\T1/pcr/m/n/9 options(na.action = na.exclude) # predict all 1384 obs, incl uding missing[] [3561] [3562] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1732--1732 []\T1/pcr/m/n/10 cox.zph(fit, transform="km", terms=TRUE, singledf=FALSE, glob al=TRUE) [3563] [3564] [3565] [3566] Underfull \hbox (badness 10000) in paragraph at lines 2048--2063 []\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 2048--2063 \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 2048--2063 \T1/ptm/m/n/10 cial terms, e.g., []\T1/pcr/m/n/10 survival::coxph(survival:Surv (time, status) ~ age + [3567] Underfull \hbox (badness 3861) in paragraph at lines 2143--2147 [][][]\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 , [3568] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2198--2198 []\T1/pcr/m/n/10 iter.max = 20, toler.inf = sqrt(eps), outer.max = 10, timefix =TRUE)[] [3569] [3570] [3571] [3572] [3573] [3574] [3575] [3576] [3577] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2825--2825 [] \T1/pcr/m/n/9 [1] "extreme" "logistic" "gaussian" "weibull" " exponential"[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2866--2866 []\T1/pcr/m/n/10 finegray(formula, data, weights, subset, na.action= na.pass, etype, [3578] [3579] [3580] [3581] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3110--3110 []\T1/pcr/m/n/10 frailty.t(x, sparse = (nclass > 5), theta, df, eps = 1e-05, t df = 5,[] [3582] [3583] [3584] [3585] [3586] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3451--3451 []\T1/pcr/m/n/9 kfit <- coxph(Surv(time, status)~ age + sex + disease + frailt y(id), kidney) [3587] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3486--3486 [] \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 3500--3502 []\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 Overfull \hbox (12.78088pt too wide) in paragraph at lines 3511--3511 [] \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "ar csin"),[] [3588] [3589] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3645--3645 [] \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 )))[] [3590] [3591] Overfull \hbox (467.89665pt too wide) in alignment at lines 3786--3786 [] [] [3592] [3593] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3908--3908 []\T1/pcr/m/n/9 # surprise) but their rates of conversion to PCM are essential ly the same.[] [3594] [3595] [3596] [3597] [3598] [3599] [3600] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4344--4344 [] \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 )))[] [3601] [3602] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4494--4494 []\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 4499--4499 []\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 4503--4503 []\T1/pcr/m/n/9 unname(coef(fit1)[-1] - coef(fit1)[1]) # differences: yhat[2: 4] - yhat[1][] [3603] Underfull \vbox (badness 1527) has occurred while \output is active [3604] [3605] [3606] [3607] [3608] [3609] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4920--4920 [] \T1/pcr/m/n/10 pch=3, col=1, lty=1, lwd=1, cex=1, log=FALSE, xscale=1, ysca le=1,[] [3610] [3611] [3612] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5150--5150 []\T1/pcr/m/n/10 se.fit=FALSE, na.action=na.pass, terms=names(object$assign), collapse,[] [3613] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5276--5276 []\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[] [3614] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5284--5284 [] \T1/pcr/m/n/9 predict(fit, reference="sample") + sum(coef(fit) * fit$means , na.rm=TRUE)[] [3615] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5370--5370 []\T1/pcr/m/n/9 pct <- 1:98/100 # The 100th percentile of predicted survival is at +infinity[] [3616] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5448--5448 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), expand=FALSE , ...)[] [3617] Underfull \hbox (badness 1852) in paragraph at lines 5520--5522 []\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 [3618] [3619] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5646--5646 []\T1/pcr/m/n/10 pseudo(fit, times, type, addNA=TRUE, data.frame=FALSE, minus1 =FALSE, ...) [3620] [3621] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5757--5757 []\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 5769--5769 []\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 5771--5771 []\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 5795--5795 []\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 5796--5796 [] \T1/pcr/m/n/10 Boundary.knots=range(x), intercept=FALSE, penalty=TRUE, co mbine, ...)[] [3622] [3623] [3624] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5959--5959 [] \T1/pcr/m/n/10 py <- pyears(futime ~ rx, rmap=list(age=age, sex=sex, year= entry.dt),[] [3625] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6061--6061 []\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 6082--6082 []\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 6084--6084 []\T1/pcr/m/n/9 fit2 <- pyears(Surv(stop/365.25, event) ~ tcut(age + 48, c(0,5 0,60,70,100)) +[] [3626] [3627] [3628] [3629] Underfull \vbox (badness 3168) has occurred while \output is active [3630] [3631] [3632] Overfull \hbox (42.78088pt too wide) in paragraph at lines 6550--6550 [] \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfbe tas")), ...)[] [3633] [3634] [3635] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6731--6731 []\T1/pcr/m/n/10 residuals(object, type=c("response", "deviance","dfbeta","dfb etas",[] Underfull \hbox (badness 1043) in paragraph at lines 6743--6746 []\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 [3636] [3637] [3638] [3639] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7050--7050 []\T1/pcr/m/n/9 lfit1 <- survreg(Surv(time, status) ~ age + ridge(ph.ecog, the ta=5), lung)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7051--7051 []\T1/pcr/m/n/9 lfit2 <- survreg(Surv(time, status) ~ sex + ridge(age, ph.ecog , theta=1), lung)[] [3640] [3641] [3642] Overfull \hbox (72.78088pt too wide) in paragraph at lines 7223--7223 []\T1/pcr/m/n/10 rttright(formula, data, weights, subset, na.action, times, id , timefix = TRUE) [3643] Overfull \hbox (42.18039pt too wide) in paragraph at lines 7304--7304 []\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 7308--7308 []\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.7312 ...ata from a soldering experiment}{solder} [3644] Overfull \vbox (33.26576pt too high) has occurred while \output is active [3645] Overfull \hbox (24.78088pt too wide) in paragraph at lines 7418--7418 []\T1/pcr/m/n/10 statefig(layout, connect, margin = 0.03, box = TRUE, cex = 1, col = 1, [3646] [3647] [3648] [3649] [3650] Overfull \hbox (42.78088pt too wide) in paragraph at lines 7782--7782 []\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 7783--7783 []\T1/pcr/m/n/10 ci.r = FALSE, ci.rr = FALSE, totals=FALSE, legend = TRUE, vli ne = FALSE,[] [3651] [3652] [3653] [3654] [3655] Overfull \hbox (54.78088pt too wide) in paragraph at lines 8100--8100 [] \T1/pcr/m/n/10 type=c(\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 right\TS1/pcr/m/n/ 10 '\T1/pcr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 left\TS1/pcr/m/n/10 '\T1/p cr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 interval\TS1/pcr/m/n/10 '\T1/pcr/m/ n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 counting\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 interval2\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 , \T S1/pcr/m/n/10 '\T1/pcr/m/n/10 mstate\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ),[] [3656] [3657] [3658] Underfull \hbox (badness 1253) in paragraph at lines 8389--8392 []\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 [3659] [3660] Overfull \hbox (30.78088pt too wide) in paragraph at lines 8519--8519 []\T1/pcr/m/n/10 survcheck(formula, data, subset, na.action, id, istate, istat e0="(s0)", [3661] [3662] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8633--8633 []\T1/pcr/m/n/10 survcondense(formula, data, subset, weights, na.action= na.pa ss, id, [3663] [3664] [3665] Overfull \hbox (36.7804pt too wide) in paragraph at lines 8832--8832 [] \T1/pcr/m/n/9 rmap= list(age=(accept.dt - birth.dt), sex=1 , year=accept.dt),[] [3666] Overfull \hbox (24.78088pt too wide) in paragraph at lines 8857--8857 [] \T1/pcr/m/n/10 method=c("ederer", "hakulinen", "conditional", "indiv idual.h",[] Underfull \hbox (badness 1038) in paragraph at lines 8899--8905 []\T1/ptm/m/n/10 op-tion does not cre-ate a curve, rather it re-trieves the pre -dicted sur-vival [3667] Overfull \hbox (48.78088pt too wide) in paragraph at lines 8951--8951 [] \T1/pcr/m/n/10 rmap = list(year=entry.dt, age=(birth.d t-entry.dt)),[] [3668] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9037--9037 []\T1/pcr/m/n/9 summary(fit1, times=1:10*182.5, scale=365) #expected survival by 1/2 years[] [3669] [3670] [3671] Underfull \hbox (badness 10000) in paragraph at lines 9257--9262 [][][]\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 , Overfull \hbox (12.78088pt too wide) in paragraph at lines 9277--9277 [] \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 9278--9278 [] \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", "arcsin"),[] [3672] Overfull \hbox (18.78088pt too wide) in paragraph at lines 9283--9283 [] \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 9284--9284 [] \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", "arcsin"),[] [3673] [3674] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9507--9507 [] \T1/pcr/m/n/10 stype=1, ctype=1, id, cluster, robust, istate, timefi x=TRUE,[] [3675] [3676] Underfull \hbox (badness 2653) in paragraph at lines 9641--9646 \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, [3677] [3678] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9781--9781 []\T1/pcr/m/n/9 # There are no interval censored subjects, only left-censored (status=3),[] [3679] [3680] [3681] [3682] [3683] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10168--10168 []\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 10209--10213 []\T1/ptm/m/n/10 survival times, for time de-pen-dent pre-dic-tion. It gives th e time range [3684] Overfull \hbox (60.78088pt too wide) in paragraph at lines 10255--10255 []\T1/pcr/m/n/10 survConcordance(formula, data, weights, subset, na.action) # use concordance [3685] [3686] Underfull \hbox (badness 2035) in paragraph at lines 10419--10426 \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 10419--10426 \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 10419--10426 []\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 [3687] [3688] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10509--10509 []\T1/pcr/m/n/9 # There are multiple ways to parameterize a Weibull distributi on. The survreg[] [3689] [3690] Overfull \hbox (31.3804pt too wide) in paragraph at lines 10666--10666 [] \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 )[] [3691] [3692] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10798--10798 [] \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 10801--10801 [] \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 )[] [3693] [3694] [3695] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10961--10961 []\T1/pcr/m/n/9 pfit2 <- pyears(Surv(years, death) ~ fgrp + agegrp, scale =100 0, data=test)[] [3696] [3697] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11119--11119 []\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 11120--11120 []\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 11126--11126 [] \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 11128--11128 []\T1/pcr/m/n/9 fit <- coxph(Surv(tstart, tstop, endpt==2) ~ protime + log(bil i), data=pbc2)[] [3698] [3699] [3700] [3701] [3702] [3703] [3704] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11569--11569 []\T1/pcr/m/n/10 levels, test = c("global", "trend", "pairwise"), predict = "l inear",[] [3705] [3706] [3707]) [3708] No file fullrefman.ind. 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Note that t his is the type used by Underfull \hbox (badness 3009) in paragraph at lines 231--243 []\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] [7] Underfull \hbox (badness 10000) in paragraph at lines 374--378 [][][]\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 571--577 []\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 639--639 []\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 640--640 []\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) [14] [15] Overfull \hbox (4.38043pt too wide) in paragraph at lines 920--920 []\T1/pcr/m/n/9 all.equal(tan(d45), one, tolerance = 0, scale = 1+(-2:2)/1e9) # "absolute"[] [16] Overfull \hbox (4.38043pt too wide) in paragraph at lines 941--941 []\T1/pcr/m/n/9 mtext(paste("mean(all.equal(x1, x2*(1 + eps_k))) {100 x} Mean rel.diff.=",[] [17] Overfull \hbox (0.78088pt too wide) in paragraph at lines 990--990 []\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] Underfull \hbox (badness 1221) in paragraph at lines 1523--1529 []\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 1611--1617 Underfull \hbox (badness 10000) in paragraph at lines 1624--1626 []\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . orac le . 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 1966--1966 [] \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 1998--2001 []\T1/ptm/m/n/10 logical or in-te-ger; in-di-cat-ing if col-umn names with more than 256 (or [32] Underfull \hbox (badness 1325) in paragraph at lines 2027--2031 []\T1/ptm/m/n/10 Direct calls to []\T1/pcr/m/n/10 as.data.frame.() []\T1 /ptm/m/n/10 are still pos-si-ble (base pack-age!), for 12 Underfull \hbox (badness 3568) in paragraph at lines 2027--2031 \T1/ptm/m/n/10 atomic base classes, but will dep-re-cated (al-ready vis-i-bly b y set-ting en-vi-ron-ment vari- Underfull \hbox (badness 4144) in paragraph at lines 2027--2031 \T1/ptm/m/n/10 able []\T1/pcr/m/n/10 _R_CHECK_AS_DATA_FRAME_EXPLICIT_METHOD_ [] \T1/ptm/m/n/10 to non-empty) where call-ing [33] [34] [35] Overfull \hbox (112.38031pt too wide) in paragraph at lines 2267--2267 []\T1/pcr/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [36] Underfull \hbox (badness 10000) in paragraph at lines 2305--2307 []\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 2579--2579 []\T1/pcr/m/n/9 (now <- as.POSIXlt(Sys.time())) # the current datetime, as cla ss "POSIXlt"[] [41] [42] [43] Underfull \hbox (badness 1107) in paragraph at lines 2783--2785 []\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] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2950--2950 []\T1/pcr/m/n/10 attach(what, pos = 2L, name = deparse1(substitute(what), back tick=FALSE), [46] [47] [48] [49] [50] [51] [52] Underfull \hbox (badness 10000) in paragraph at lines 3413--3416 []\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 3718--3718 []\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 3749--3749 []\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 3750--3750 [] \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 3757--3757 []\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 3758--3758 [] \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 3761--3761 []\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 4209--4211 []\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] Underfull \hbox (badness 4927) in paragraph at lines 4714--4718 []\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 4714--4718 \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 [72] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4798--4798 [] \T1/pcr/m/n/10 Xchk = any(nas %in% c("X11", "jpeg", "png", "tif f")))[] [73] Underfull \hbox (badness 4595) in paragraph at lines 4872--4875 []\T1/ptm/m/n/10 is ICU avail-able for col-la-tion? See the help on [][]Com-par -i-son[][][] and [74] [75] [76] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5035--5035 []\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 5064--5070 []\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 5076--5079 []\T1/ptm/m/n/10 (only for data frame method:) log-i-cal in-di-cat-ing if uniqu e and valid [77] [78] [79] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5249--5249 []\T1/pcr/m/n/9 rbind(1:4, c = 2, "a++" = 10, dd, deparse.level = 1) # 3 rowna mes (default)[] [80] [81] [82] Underfull \hbox (badness 2521) in paragraph at lines 5505--5507 []\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 [83] [84] [85] [86] [87] [88] [89] [90] Underfull \hbox (badness 1270) in paragraph at lines 5997--6005 []\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", [91] [92] [93] [94] [95] [96] [97] [98] Underfull \hbox (badness 1796) in paragraph at lines 6571--6579 []\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 : / / [99] [100] [101] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6768--6768 []\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 6770--6770 []\T1/pcr/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6771--6771 []\T1/pcr/m/n/9 showC(NpNA)# but not always is {shows \TS1/pcr/m/n/9 '\T1/pcr /m/n/9 (R = NaN, I = NA)\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 on some platforms}[] [102] [103] Underfull \hbox (badness 1635) in paragraph at lines 6973--6976 []\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 6977--6980 []\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 [104] Underfull \hbox (badness 1308) in paragraph at lines 7020--7028 []\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 [105] [106] Overfull \hbox (30.78088pt too wide) in paragraph at lines 7184--7184 []\T1/pcr/m/n/10 unz(description, filename, open = "", encoding = getOption("e ncoding"))[] [107] Underfull \hbox (badness 4505) in paragraph at lines 7236--7239 []\T1/ptm/m/n/10 character string, par-tially matched to []\T1/pcr/m/n/10 c("de fault", "internal", [108] [109] Underfull \hbox (badness 1997) in paragraph at lines 7373--7378 []\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 unz[]\T1/ptm/m /n/10 , []\T1/pcr/m/n/10 socketConnection[]\T1/ptm/m/n/10 , [110] [111] [112] Underfull \hbox (badness 10000) in paragraph at lines 7621--7623 []\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 7663--7670 []\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 Underfull \hbox (badness 6592) in paragraph at lines 7663--7670 \T1/ptm/m/n/10 reads the X11 pri-mary se-lec-tion (see [][]$\T1/pcr/m/n/10 http s : / / specifications . freedesktop . Underfull \hbox (badness 1735) in paragraph at lines 7663--7670 []\T1/pcr/m/n/10 "X11_primary" []\T1/ptm/m/n/10 and the sec-ondary se-lec-tion as []\T1/pcr/m/n/10 "X11_secondary"[]\T1/ptm/m/n/10 . On most sys- [113] [114] [115] Underfull \vbox (badness 10000) has occurred while \output is active [116] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7878--7878 []\T1/pcr/m/n/9 A <- read.table(con <- file("students", encoding = "UCS-2LE")) ; close(con)[] [117] [118] [119] [120] Underfull \hbox (badness 10000) in paragraph at lines 8211--8213 []\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th e call to [121] [122] [123] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8369--8369 []\T1/pcr/m/n/9 curlGetHeaders("http://bugs.r-project.org") ## this redirect s to https://[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8371--8371 []\T1/pcr/m/n/9 ## curlGetHeaders("ftp://cran.r-project.org") ## ftp::// suppo rt is vanishing[] [124] [125] [126] [127] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8602--8602 []\T1/pcr/m/n/9 tm <- seq(as.POSIXct("2012-06-01 06:00"), by = "6 hours", leng th.out = 24)[] [128] Underfull \hbox (badness 10000) in paragraph at lines 8718--8728 []\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 8718--8728 [][][]\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 [129] [130] [131] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8886--8886 [] \T1/pcr/m/n/9 c = seq(as.Date("2004-01-01"), by = "week", l ength.out = 3),[] [132] [133] [134] [135] Underfull \hbox (badness 10000) in paragraph at lines 9214--9226 \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 [136] [137] [138] [139] [140] [141] [142] Underfull \hbox (badness 10000) in paragraph at lines 9758--9762 []\T1/pcr/m/n/10 .Defunct []\T1/ptm/m/n/10 is called from de-funct func-tions. Func-tions should be listed in [143] [144] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9849--9849 []\T1/pcr/m/n/9 ### Promises in an environment [for advanced users]: -------- -------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9851--9851 []\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 9879--9879 [] \T1/pcr/m/n/10 backtick = mode(expr) %in% c("call", "expression", "( ", "function"),[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 9880--9880 [] \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "sh owAttributes"),[] [145] [146] Underfull \hbox (badness 5403) in paragraph at lines 10011--10013 []\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 10030--10032 []\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 [147] [148] [149] Underfull \hbox (badness 1603) in paragraph at lines 10261--10264 []\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 [150] [151] [152] [153] [154] [155] [156] Overfull \hbox (12.78088pt too wide) in paragraph at lines 10726--10726 [] \T1/pcr/m/n/10 z <- as.POSIXct(c("2016-12-31 23:59:59", "2017-01-01 00:0 0:01"))[] [157] [158] Underfull \hbox (badness 1917) in paragraph at lines 10890--10895 []\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 [159] Overfull \hbox (36.7804pt too wide) in paragraph at lines 10945--10945 []\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 10946--10946 []\T1/pcr/m/n/9 strd(provideDimnames(A, base= list(c("AA","BB")))) # recycling on both levels[] [160] [161] Underfull \hbox (badness 1168) in paragraph at lines 11048--11053 []\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 [162] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11150--11150 []\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 11152--11152 []\T1/pcr/m/n/9 chk.n2 <- function(...) stopifnot(identical(print(...names()), names(list(...))))[] [163] [164] Underfull \hbox (badness 2828) in paragraph at lines 11271--11276 [][][]$\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 11271--11276 \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 11271--11276 \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 : Overfull \hbox (42.78088pt too wide) in paragraph at lines 11302--11302 [] \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "showA ttributes"))[] [165] Overfull \hbox (15.18042pt too wide) in paragraph at lines 11376--11376 []\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, ..[] [166] [167] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11525--11525 []\T1/pcr/m/n/9 aq <- transform(airquality, Month = factor(Month, labels = mon th.abb[5:9])) [168] [169] [170] Underfull \hbox (badness 6396) in paragraph at lines 11723--11731 []\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 11732--11734 []\T1/pcr/m/n/10 duplicated(x, fromLast = TRUE) []\T1/ptm/m/n/10 is equiv-a-len t to but faster than [171] [172] [173] Underfull \hbox (badness 10000) in paragraph at lines 11949--11952 []\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 [174] [175] [176] [177] [178] [179] Underfull \hbox (badness 2744) in paragraph at lines 12393--12395 []\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 [180] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12416--12416 []\T1/pcr/m/n/9 Encoding(x.) # "unknown" (UTF-8 loc.) | "latin1" (8859-1/CP-12 52 loc.) | ....[] [181] [182] [183] Underfull \hbox (badness 5288) in paragraph at lines 12668--12670 []\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 12678--12683 []\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 [184] Underfull \hbox (badness 10000) in paragraph at lines 12735--12738 []\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 12753--12755 []\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for [185] [186] [187] [188] Underfull \hbox (badness 10000) in paragraph at lines 13003--13005 []\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 13046--13048 []\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 [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13869--13869 []\T1/pcr/m/n/9 ## "avector" := vector that keeps attributes. Could provide a constructor[] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] Underfull \hbox (badness 2253) in paragraph at lines 14597--14599 []\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 14632--14635 []\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m a-tion is given about the [211] [212] Underfull \hbox (badness 2573) in paragraph at lines 14765--14767 []\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 = [213] [214] Underfull \hbox (badness 10000) in paragraph at lines 14924--14926 []\T1/ptm/m/n/10 logical: should file dates be pre-served where pos-si-ble? See [215] [216] Underfull \hbox (badness 10000) in paragraph at lines 15045--15049 [][][]\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 15056--15059 [][][]$\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 15077--15077 [] \T1/pcr/m/n/9 # |--> (TRUE,FALSE) : ok for A but not B as it exists already[] [217] Overfull \hbox (30.78088pt too wide) in paragraph at lines 15102--15102 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode = "0777")[] [218] Underfull \hbox (badness 10000) in paragraph at lines 15199--15202 [][][]\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 15209--15209 []\T1/pcr/m/n/9 f <- list.files(".", all.files = TRUE, full.names = TRUE, recu rsive = TRUE)[] [219] Underfull \hbox (badness 10000) in paragraph at lines 15275--15278 []\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 15292--15292 []\T1/pcr/m/n/9 ## will not give an error, maybe a warning about *all* locatio ns it is found:[] [220] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15321--15321 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F ALSE, Underfull \hbox (badness 3965) in paragraph at lines 15353--15357 []\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, [221] [222] [223] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15517--15517 [] \T1/pcr/m/n/10 .C(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO DING) Overfull \hbox (0.78088pt too wide) in paragraph at lines 15518--15518 [] \T1/pcr/m/n/10 .Fortran(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO DING)[] [224] [225] [226] [227] Overfull \hbox (63.78036pt too wide) in paragraph at lines 15760--15760 []\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 15763--15763 []\T1/pcr/m/n/9 ## formals returns NULL for primitive functions. Use it in co mbination with[] [228] Underfull \hbox (badness 1168) in paragraph at lines 15849--15853 []\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 15849--15853 \T1/ptm/m/n/10 tor should be en-coded in sci-en-tific for-mat, or an in-te-ger penalty (see [229] Underfull \hbox (badness 6944) in paragraph at lines 15946--15949 [][][]\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 , [230] Overfull \hbox (4.38043pt too wide) in paragraph at lines 15971--15971 []\T1/pcr/m/n/9 z <- list(a = letters[1:3], b = (-pi+0i)^((-2:2)/2), c = c(1,1 0,100,1000),[] [231] [232] Underfull \hbox (badness 10000) in paragraph at lines 16109--16111 []\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 16129--16129 [] \T1/pcr/m/n/10 decimal.mark = getOption("OutDec"), input.d.mark = decimal.mark,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16135--16135 []\T1/pcr/m/n/10 .format.zeros(x, zero.print, nx = suppressWarnings(as.numeric (x)),[] Underfull \hbox (badness 2790) in paragraph at lines 16142--16145 []\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 [233] Underfull \hbox (badness 1024) in paragraph at lines 16173--16180 []\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 [234] Underfull \hbox (badness 10000) in paragraph at lines 16248--16250 []\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 16270--16275 []\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 16276--16278 []\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 = Underfull \hbox (badness 10000) in paragraph at lines 16287--16295 []\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 [235] [236] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16395--16395 []\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 ")[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 16417--16417 []\T1/pcr/m/n/9 doLC <- FALSE # <= R warns, so change to TRUE manually if you want see the effect[] Underfull \vbox (badness 10000) has occurred while \output is active [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17251--17251 []\T1/pcr/m/n/9 utils::tail(getLoadedDLLs(), 2) # the last 2 loaded ones, stil l a DLLInfoList[] [249] [250] Underfull \hbox (badness 2418) in paragraph at lines 17360--17364 \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 , Underfull \hbox (badness 6510) in paragraph at lines 17367--17370 []\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 17402--17409 [][][]\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 , [251] [252] Underfull \hbox (badness 10000) in paragraph at lines 17509--17513 []\T1/ptm/m/n/10 The spe-cial case []\T1/pcr/m/n/10 bindtextdomain(NULL) []\T1/ ptm/m/n/10 calls C level Underfull \hbox (badness 3302) in paragraph at lines 17509--17513 []\T1/pcr/m/n/10 textdomain(textdomain(NULL)) []\T1/ptm/m/n/10 for the pur-pose of flush-ing (i.e., emp-ty-ing) the [253] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17572--17572 []\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 17575--17575 []\T1/pcr/m/n/9 gettext(enT, domain="R-stats")# "leeres Modell angegeben" (if translation works)[] Underfull \vbox (badness 10000) has occurred while \output is active [254] Overfull \hbox (15.18042pt too wide) in paragraph at lines 17606--17606 []\T1/pcr/m/n/9 ## Here, we reset to the *original* setting before the full ex ample started:[] [255] [256] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17743--17743 []\T1/pcr/m/n/10 grep(pattern, x, ignore.case = FALSE, perl = FALSE, value = F ALSE, Underfull \hbox (badness 1867) in paragraph at lines 17771--17778 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [257] [258] [259] [260] [261] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18089--18089 [] \T1/pcr/m/n/9 nms <- nms[is.na(match(nms, c("F","T")))] # <-- work around "checking hack"[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 18118--18118 []\T1/pcr/m/n/9 name.rex <- "(?[[:upper:]][[:lower:]]+) (?[[:uppe r:]][[:lower:]]+)"[] Underfull \vbox (badness 10000) has occurred while \output is active [262] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18174--18174 [] \T1/pcr/m/n/10 value = FALSE, fixed = FALSE, all = FALSE, invert = F ALSE)[] [263] [264] [265] [266] [267] Overfull \hbox (9.78043pt too wide) in paragraph at lines 18567--18567 []\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))) [268] Overfull \hbox (4.38043pt too wide) in paragraph at lines 18632--18632 []\T1/pcr/m/n/9 z <- gzcon(url("https://www.stats.ox.ac.uk/pub/datasets/csb/ch 12.dat.gz"))[] [269] [270] [271] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18845--18845 []\T1/pcr/m/n/10 iconv(x, from = "", to = "", sub = NA, mark = TRUE, toRaw = F ALSE) [272] [273] [274] [275] Underfull \hbox (badness 1163) in paragraph at lines 19189--19191 []\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 / [276] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19197--19197 []\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.[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 19227--19227 []\T1/pcr/m/n/10 identical(x, y, num.eq = TRUE, single.NA = TRUE, attrib.as.se t = TRUE, [277] Overfull \hbox (30.78088pt too wide) in paragraph at lines 19321--19321 [] \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 19322--19322 [] \T1/pcr/m/n/10 ignore.bytecode = FALSE, ignore.environment = F ALSE,[] [278] Overfull \hbox (25.98041pt too wide) in paragraph at lines 19375--19375 []\T1/pcr/m/n/9 ### For functions ("closure"s): ------------------------------ ----------------[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 19381--19381 []\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 19384--19384 []\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 19390--19390 []\T1/pcr/m/n/9 op <- options(keep.source = TRUE) # and so, these have differi ng "srcref" :[] [279] [280] Overfull \hbox (4.38043pt too wide) in paragraph at lines 19517--19517 []\T1/pcr/m/n/9 ## This is a (not atypical) case where it is better *not* to u se ifelse(),[] [281] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19525--19525 []\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):[] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 19730--19732 []\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 [284] [285] [286] [287] [288] Underfull \hbox (badness 10000) in paragraph at lines 20070--20076 Underfull \hbox (badness 10000) in paragraph at lines 20083--20085 []\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . orac le . com / cd / E19957-[]01 / 806-[]3568 / ncg _ [289] [290] [291] Underfull \hbox (badness 4699) in paragraph at lines 20315--20318 []\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 , [292] [293] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20443--20443 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = " GMT")[] [294] [295] [296] Underfull \hbox (badness 4739) in paragraph at lines 20578--20580 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [297] Overfull \hbox (36.7804pt too wide) in paragraph at lines 20627--20627 []\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 20628--20628 []\T1/pcr/m/n/9 isSymmetric(D3, check.attributes=FALSE) # TRUE (as names are not checked)[] [298] [299] Underfull \hbox (badness 2961) in paragraph at lines 20805--20808 []\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 : / / [300] [301] [302] [303] [304] [305] [306] Underfull \hbox (badness 1975) in paragraph at lines 21246--21249 []\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 [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 1077) in paragraph at lines 21662--21667 []\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 Underfull \hbox (badness 10000) in paragraph at lines 21676--21683 [][][]$\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 / [313] Underfull \hbox (badness 1112) in paragraph at lines 21749--21758 []\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 , [314] Underfull \hbox (badness 2970) in paragraph at lines 21807--21810 []\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 21807--21810 \T1/ptm/m/n/10 hid-den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [315] [316] Underfull \hbox (badness 10000) in paragraph at lines 21920--21924 []\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 21920--21924 [][][]\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 21925--21932 []\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- [317] [318] Underfull \hbox (badness 10000) in paragraph at lines 22054--22061 [][][]\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 , [319] Underfull \hbox (badness 10000) in paragraph at lines 22175--22179 []\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 [320] Underfull \hbox (badness 5161) in paragraph at lines 22245--22250 []\T1/ptm/m/n/10 A small num-ber of files (some of the API header files) are di s-tributed un-der the Underfull \hbox (badness 6592) in paragraph at lines 22245--22250 \T1/ptm/m/n/10 LESSER GNU GEN-ERAL PUB-LIC LI-CENSE, ver-sion 2.1 or later. A c opy of Underfull \hbox (badness 5133) in paragraph at lines 22245--22250 \T1/ptm/m/n/10 this li-cense is in file `\T1/pcr/m/n/10 $R_SHARE_DIR/licenses/L GPL-2.1\T1/ptm/m/n/10 ' and can be viewed Underfull \hbox (badness 10000) in paragraph at lines 22245--22250 \T1/ptm/m/n/10 by []\T1/pcr/m/n/10 RShowDoc("LGPL-2.1")[]\T1/ptm/m/n/10 . Ver-s ion 3 of the li-cense can be dis-played by [321] [322] [323] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22413--22413 [] \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22417--22417 [] \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = FALSE)[] [324] Underfull \hbox (badness 3343) in paragraph at lines 22478--22482 [][][]\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 [325] [326] Overfull \hbox (4.38043pt too wide) in paragraph at lines 22616--22616 [] \T1/pcr/m/n/9 identical(L$b, e$b)) # "$" working for environments as for lists[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 22627--22627 [] \T1/pcr/m/n/9 df = data.frame(x = rnorm(20), y = rbinom(20, 1, prob = 0.2))),[] [327] [328] Overfull \hbox (9.78043pt too wide) in paragraph at lines 22738--22738 []\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 22741--22741 []\T1/pcr/m/n/9 attach("all.rda") # safer and will warn about masked objects w / same name in .GlobalEnv[] Underfull \hbox (badness 6380) in paragraph at lines 22788--22796 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup- [329] [330] Underfull \hbox (badness 2564) in paragraph at lines 22891--22894 []\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 Overfull \hbox (4.38043pt too wide) in paragraph at lines 22932--22932 []\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 22936--22936 []\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 22940--22940 []\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 22947--22947 []\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 22949--22949 []\T1/pcr/m/n/9 Sys.setenv("LANGUAGE" = "es") # set the language for error/war ning messages[] [331] Overfull \hbox (42.18039pt too wide) in paragraph at lines 22957--22957 [] \T1/pcr/m/n/9 sg <- matrix(unlist(strsplit(strsplit(Sys.getlocale(), sep)[[ 1]], "=")), nrow=2)[] [332] [333] Underfull \hbox (badness 1400) in paragraph at lines 23118--23122 [][][]\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 [334] [335] [336] [337] [338] [339] [340] [341] [342] [343] [344] [345] Overfull \hbox (52.98038pt too wide) in paragraph at lines 23960--23960 []\T1/pcr/m/n/9 zN <- c(complex(real = NA , imaginary = r ), complex(real = r , imaginary = NA ),[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 23961--23961 [] \T1/pcr/m/n/9 complex(real = r , imaginary = NaN), complex(real = N aN, imaginary = r ))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 23964--23964 []\T1/pcr/m/n/9 zM ##--> many "NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s" (= 1) and th e four non-NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s (3 different ones, at 7,9,10)[] [346] [347] Overfull \hbox (20.58041pt too wide) in paragraph at lines 24061--24061 []\T1/pcr/m/n/9 match.arg(c("a", ""), c("", NA, "bb", "abc"), several.ok=TRUE ) # |--> "abc"[] Underfull \hbox (badness 1655) in paragraph at lines 24095--24099 []\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion (also known as a `clo-sure'): [348] [349] [350] [351] Underfull \hbox (badness 2277) in paragraph at lines 24346--24349 []\T1/ptm/m/n/10 For ma-trix \T1/ptm/m/it/10 cross\T1/ptm/m/n/10 products, [][] []\T1/pcr/m/n/10 crossprod[][][]() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 tcross prod() []\T1/ptm/m/n/10 are typ-i-cally prefer-able. [352] [353] [354] [355] [356] [357] [358] [359] [360] Underfull \hbox (badness 1484) in paragraph at lines 24933--24941 []\T1/ptm/m/n/10 The address-space limit is 2Gb un-der 32-bit Win-dows un-less the OS's de-fault has been Underfull \hbox (badness 1152) in paragraph at lines 24933--24941 \T1/ptm/m/n/10 changed to al-low more (up to 3Gb). See [][]$\T1/pcr/m/n/10 http s : / / docs . microsoft . com / en-[]gb / [361] Overfull \hbox (0.78088pt too wide) in paragraph at lines 25007--25007 [] \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y = all,[] [362] [363] [364] [365] [366] [367] [368] [369] Underfull \hbox (badness 1448) in paragraph at lines 25554--25562 []\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 = [370] Underfull \hbox (badness 3849) in paragraph at lines 25669--25674 []\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 [371] Underfull \hbox (badness 2165) in paragraph at lines 25746--25752 []\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 25746--25752 \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 25746--25752 \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, [372] [373] [374] Underfull \hbox (badness 2237) in paragraph at lines 25909--25911 []\T1/ptm/m/n/10 character string: par-tial match-ing to one of []\T1/pcr/m/n/1 0 c("bytes", "chars", [375] [376] [377] Underfull \hbox (badness 6188) in paragraph at lines 26136--26139 []\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 [378] [379] [380] Underfull \hbox (badness 1521) in paragraph at lines 26321--26335 \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- [381] [382] [383] [384] Underfull \hbox (badness 2197) in paragraph at lines 26635--26639 []\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 26635--26639 []\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 [385] Underfull \hbox (badness 2846) in paragraph at lines 26649--26653 []\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 26649--26653 \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 26691--26691 []\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 26695--26695 [] \T1/pcr/m/n/10 keep.parse.data = getOption("keep.parse.data.pk gs"))[] [386] Underfull \hbox (badness 10000) in paragraph at lines 26744--26750 []\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 26744--26750 []\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 26757--26759 []\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% [387] Overfull \hbox (4.38043pt too wide) in paragraph at lines 26824--26824 [] \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 interchangably here:[] [388] [389] [390] Underfull \hbox (badness 8189) in paragraph at lines 27019--27025 []\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[][][] [391] [392] [393] Underfull \hbox (badness 2591) in paragraph at lines 27245--27253 \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 [394] [395] [396] [397] Underfull \hbox (badness 1603) in paragraph at lines 27527--27529 []\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a re con-verted by [398] [399] Underfull \hbox (badness 1210) in paragraph at lines 27654--27662 []\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- [400] [401] Underfull \hbox (badness 3271) in paragraph at lines 27874--27877 []\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men t vari-able [402] [403] [404] Underfull \hbox (badness 3138) in paragraph at lines 28180--28186 []\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 28180--28186 \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 28180--28186 \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 [405] Underfull \hbox (badness 1194) in paragraph at lines 28193--28196 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/pcr/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/pcr/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 1389) in paragraph at lines 28219--28221 []\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 28246--28252 []\T1/ptm/m/n/10 logical: should per-directory pack-age lock-ing be used by Underfull \hbox (badness 3826) in paragraph at lines 28261--28266 []\T1/ptm/m/n/10 Used by [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly [406] Underfull \hbox (badness 1009) in paragraph at lines 28279--28282 []\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 Underfull \hbox (badness 10000) in paragraph at lines 28295--28298 []\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle d -- see Underfull \hbox (badness 10000) in paragraph at lines 28303--28309 []\T1/pcr/m/n/10 "source" []\T1/ptm/m/n/10 (the de-fault ex-cept un-der a CRAN ma-cOS Underfull \hbox (badness 10000) in paragraph at lines 28303--28309 \T1/ptm/m/n/10 build), []\T1/pcr/m/n/10 "mac.binary" []\T1/ptm/m/n/10 and []\T1 /pcr/m/n/10 "both" []\T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS Underfull \hbox (badness 10000) in paragraph at lines 28303--28309 \T1/ptm/m/n/10 builds). ([]\T1/pcr/m/n/10 "mac.binary.el-capitan"[]\T1/ptm/m/n/ 10 , []\T1/pcr/m/n/10 "mac.binary.mavericks"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 5091) in paragraph at lines 28303--28309 []\T1/pcr/m/n/10 "mac.binary.leopard" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "ma c.binary.universal" []\T1/ptm/m/n/10 are no longer [407] [408] [409] [410] [411] Overfull \hbox (4.38043pt too wide) in paragraph at lines 28675--28675 []\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 28688--28692 []\T1/ptm/m/n/10 where el-e-ment []\T1/pcr/m/n/10 A[c(arrayindex.x, arrayindex. y)] = FUN(X[arrayindex.x], [412] [413] Underfull \hbox (badness 1210) in paragraph at lines 28835--28838 []\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, [414] [415] [416] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29031--29031 []\T1/pcr/m/n/9 tryCatch(parse(text = txt, srcfile = sf), error = function(e) "Syntax error.")[] [417] Underfull \hbox (badness 7133) in paragraph at lines 29117--29123 [][][]\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 29139--29139 []\T1/pcr/m/n/9 ## Notice that the recycling rules make every input as long as the longest input.[] [418] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29151--29151 []\T1/pcr/m/n/9 paste("1st", "2nd", "3rd", collapse = ", ") # probably not wha t you wanted[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 29164--29164 []\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 more vectorized behaviour, i.e. zero-length recycling : [] Overfull \hbox (63.78036pt too wide) in paragraph at lines 29168--29168 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- good: empty!", recycle0= TRUE) # -> character(0)[] [419] [420] [421] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29356--29356 []\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 29374--29374 []\T1/pcr/m/n/9 stop() |> (function(...) {})() # stop() is not used on RHS so is not evaluated[] [422] Underfull \hbox (badness 1360) in paragraph at lines 29429--29433 []\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 = [423] [424] [425] [426] Underfull \hbox (badness 2277) in paragraph at lines 29741--29746 \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 [427] [428] Underfull \hbox (badness 1701) in paragraph at lines 29857--29861 []\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 = [429] Underfull \hbox (badness 1796) in paragraph at lines 29925--29928 []\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 [430] [431] [432] [433] Underfull \hbox (badness 10000) in paragraph at lines 30129--30132 []\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 [434] [435] [436] [437] [438] [439] [440] [441] Underfull \hbox (badness 2961) in paragraph at lines 30675--30678 []\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 : / / [442] [443] Overfull \hbox (25.98041pt too wide) in paragraph at lines 30824--30824 [] \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))[] [444] [445] [446] [447] Overfull \hbox (15.18042pt too wide) in paragraph at lines 31117--31117 []\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 31128--31128 []\T1/pcr/m/n/9 n2 <- "\U0126\U0119\U1114\U022d\U2001\U03e2\U0954\U0f3f\U13d3\ U147b\U203c"[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 31134--31134 []\T1/pcr/m/n/9 ## https://cran.r-project.org/doc/manuals/r-release/R-lang.htm l#Literal-constants[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 31140--31140 []\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 [448] [449] Underfull \hbox (badness 7415) in paragraph at lines 31237--31243 []\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 31261--31261 []\T1/pcr/m/n/9 mtext(R.version.string, side = 1, line = 4, adj = 1) # a usefu l bottom-right note[] [450] Overfull \hbox (6.78088pt too wide) in paragraph at lines 31307--31307 []\T1/pcr/m/n/10 set.seed(seed, kind = NULL, normal.kind = NULL, sample.kind = NULL)[] [451] [452] Underfull \hbox (badness 3713) in paragraph at lines 31452--31463 []\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 [453] Underfull \hbox (badness 1248) in paragraph at lines 31604--31611 \T1/ptm/m/n/10 uni-form pseudo-random num-ber gen-er-a-tor, \T1/ptm/m/it/10 ACM Trans-ac-tions on Mod-el-ing and Com-puter Underfull \hbox (badness 10000) in paragraph at lines 31604--31611 \T1/ptm/m/n/10 Now see [][]$\T1/pcr/m/n/10 http : / / www . math . sci . hirosh ima-[]u . ac . jp / ~m-[]mat / MT / VERSIONS / [454] [455] Underfull \hbox (badness 1533) in paragraph at lines 31722--31725 []\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 [456] [457] Overfull \hbox (42.78088pt too wide) in paragraph at lines 31867--31867 [] \T1/pcr/m/n/10 ties.method = c("average", "first", "last", "random", "m ax", "min"))[] [458] Underfull \hbox (badness 1038) in paragraph at lines 31885--31896 []\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 [459] [460] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32029--32029 []\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 32031--32031 []\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 32032--32032 []\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 32033--32033 []\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 32034--32034 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", h ow = "unlist")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32041--32041 []\T1/pcr/m/n/9 rapply(E, nchar, classes = "character", deflt = NA_integer_, h ow = "unlist")[] [461] [462] [463] [464] [465] Overfull \hbox (25.98041pt too wide) in paragraph at lines 32349--32349 []\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 32351--32351 []\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 32361--32361 []\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 32362--32362 []\T1/pcr/m/n/9 d2b <- function(x) vapply(as.double(x), function(x) numToBits(x) , raw(64L))[] [466] Underfull \hbox (badness 4048) in paragraph at lines 32457--32462 []\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 32457--32462 \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 32457--32462 \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 , [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 2080) in paragraph at lines 32997--33007 []\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), [475] Overfull \hbox (4.38043pt too wide) in paragraph at lines 33031--33031 []\T1/pcr/m/n/9 ## or examine the object via a connection, which will be opene d as needed.[] [476] [477] [478] [479] [480] [481] [482] Underfull \hbox (badness 7558) in paragraph at lines 33551--33555 []\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 33561--33563 []\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 Underfull \hbox (badness 10000) in paragraph at lines 33572--33574 []\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 33575--33579 []\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 . [483] [484] Underfull \vbox (badness 10000) has occurred while \output is active [485] [486] [487] [488] Overfull \hbox (4.38043pt too wide) in paragraph at lines 33946--33946 []\T1/pcr/m/n/9 rep(1:4, each = 2, times = 3) # length 24, 3 complete replications[] [489] Underfull \hbox (badness 10000) in paragraph at lines 34017--34021 [][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] [] []NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple x_[][][] [490] [491] [492] Underfull \hbox (badness 2302) in paragraph at lines 34245--34250 []\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 34245--34250 \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 - [493] [494] Overfull \hbox (12.78088pt too wide) in paragraph at lines 34378--34378 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"))[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 34381--34381 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 34388--34388 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"),[] [495] [496] [497] [498] [499] [500] [501] Overfull \hbox (66.78088pt too wide) in paragraph at lines 34836--34836 [] \T1/pcr/m/n/10 useHash = (n > 1e+07 && !replace && is.null(prob) && size <= n/2))[] [502] [503] [504] [505] [506] [507] Overfull \hbox (12.78088pt too wide) in paragraph at lines 35273--35273 [] \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, skipNul = FALSE)[] [508] [509] Underfull \hbox (badness 1158) in paragraph at lines 35377--35382 []\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 [510] [511] Overfull \hbox (15.18042pt too wide) in paragraph at lines 35563--35563 []\T1/pcr/m/n/9 cat("TITLE extra line", "2 3 5 7", "11 13 17", file = "ex.data ", sep = "\n") [512] [513] [514] Underfull \hbox (badness 4752) in paragraph at lines 35822--35825 []\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 35826--35832 []\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 [515] [516] [517] [518] [519] [520] [521] [522] [523] Underfull \hbox (badness 6094) in paragraph at lines 36412--36416 []\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 36412--36416 \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 [524] [525] Underfull \hbox (badness 3826) in paragraph at lines 36503--36514 []\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 36503--36514 \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 36503--36514 \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 36503--36514 \T1/pcr/m/n/10 parsing-[]c-[]command-[]line-[]arguments ? view = msvc-[]160$[][ ]\T1/ptm/m/n/10 . It may de-pend on the [526] [527] [528] [529] [530] [531] [532] [533] Overfull \hbox (66.78088pt too wide) in paragraph at lines 37057--37057 [] \T1/pcr/m/n/10 method = c("auto", "shell", "quick", "radix"), index .return = FALSE)[] [534] [535] [536] [537] Overfull \hbox (6.78088pt too wide) in paragraph at lines 37309--37309 [] \T1/pcr/m/n/10 print. = TRUE, echo = TRUE, max.deparse.length = Inf,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 37311--37311 [] \T1/pcr/m/n/10 deparseCtrl = c("keepInteger", "showAttributes" , "keepNA"),[] Underfull \hbox (badness 4954) in paragraph at lines 37354--37360 [][][]\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 37354--37360 [][][]\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 [538] [539] Overfull \hbox (20.58041pt too wide) in paragraph at lines 37465--37465 []\T1/pcr/m/n/9 ## (all should look "as if on top level", e.g. non-assignments should print:)[] [540] [541] [542] [543] [544] Overfull \hbox (4.38043pt too wide) in paragraph at lines 37808--37808 []\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 37823--37823 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is being added[] [545] [546] [547] Underfull \hbox (badness 10000) in paragraph at lines 38048--38050 [][][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / [548] [549] [550] Overfull \hbox (12.78088pt too wide) in paragraph at lines 38275--38275 []\T1/pcr/m/n/10 srcfile(filename, encoding = getOption("encoding"), Enc = "un known") Overfull \hbox (12.78088pt too wide) in paragraph at lines 38276--38276 []\T1/pcr/m/n/10 srcfilecopy(filename, lines, timestamp = Sys.time(), isFile = FALSE)[] [551] [552] [553] [554] [555] Overfull \hbox (63.78036pt too wide) in paragraph at lines 38607--38607 []\T1/pcr/m/n/9 startsWith(search(), "package:") # typically at least two FALS E, nowadays often three [556] Underfull \hbox (badness 6110) in paragraph at lines 38703--38713 []\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 38703--38713 \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 38703--38713 \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 38703--38713 \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 38703--38713 \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 [557] Underfull \hbox (badness 10000) in paragraph at lines 38759--38765 []\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 38759--38765 \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 38759--38765 \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 38774--38781 []\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 38774--38781 \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 38774--38781 \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 [558] Overfull \hbox (4.38043pt too wide) in paragraph at lines 38836--38836 []\T1/pcr/m/n/9 # Variable expansion in double quotes, string literals with ba ckslashes in[] [559] [560] [561] Underfull \hbox (badness 1484) in paragraph at lines 39009--39013 []\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 39074--39074 [] \T1/pcr/m/n/10 assert <- function(exprs) eval.parent(substitute(stopifnot(e xprs = exprs))) [562] [563] Underfull \hbox (badness 1436) in paragraph at lines 39176--39180 []\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 [564] [565] [566] [567] [568] Overfull \hbox (15.18042pt too wide) in paragraph at lines 39569--39569 []\T1/pcr/m/n/9 z3 # prints without fractional seconds by default, digits.sec = NULL ("= 0")[] [569] Overfull \hbox (9.78043pt too wide) in paragraph at lines 39597--39597 []\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 39598--39598 []\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")[] [570] Overfull \hbox (0.78088pt too wide) in paragraph at lines 39710--39710 [] \T1/pcr/m/n/10 add the string to the left of the match to the ou tput.[] [571] [572] [573] [574] Overfull \hbox (6.78088pt too wide) in paragraph at lines 39973--39973 [] \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p refix)[] [575] Overfull \hbox (4.38043pt too wide) in paragraph at lines 40017--40017 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll apse = "\n")[] [576] [577] [578] [579] [580] [581] Overfull \hbox (52.98038pt too wide) in paragraph at lines 40464--40464 []\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 40467--40467 []\T1/pcr/m/n/9 ## If there are missing values, the sum is unknown, i.e., also missing, ....[] [582] Underfull \hbox (badness 10000) in paragraph at lines 40518--40525 []\T1/ptm/m/n/10 integer, used for num-ber for-mat-ting with [][][]\T1/pcr/m/n/ 10 signif[][][]() []\T1/ptm/m/n/10 (for Underfull \hbox (badness 10000) in paragraph at lines 40518--40525 []\T1/pcr/m/n/10 summary.default[]\T1/ptm/m/n/10 ) or [][][]\T1/pcr/m/n/10 form at[][][]() []\T1/ptm/m/n/10 (for []\T1/pcr/m/n/10 summary.data.frame[]\T1/ptm/m /n/10 ). [583] Overfull \hbox (4.38043pt too wide) in paragraph at lines 40571--40571 []\T1/pcr/m/n/9 summary(attenu, digits = 4) #-> summary.data.frame(...), defau lt precision [584] [585] [586] [587] [588] Overfull \hbox (31.3804pt too wide) in paragraph at lines 40885--40885 [] \T1/pcr/m/n/9 cat(ch,":", switch(EXPR = ch, a =, A = 1, b = 2:3, "Otherw ise: last"),"\n")[] [589] [590] [591] Overfull \hbox (20.58041pt too wide) in paragraph at lines 41090--41090 []\T1/pcr/m/n/9 if(.Platform$OS.type == "unix") ## on Unix-alikes such Linux, macOS, FreeBSD:[] [592] Underfull \hbox (badness 2293) in paragraph at lines 41120--41126 []\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 41120--41126 \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 41139--41144 []\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 41139--41144 []\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 [593] [594] [595] [596] Underfull \hbox (badness 10000) in paragraph at lines 41427--41431 []\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 Underfull \hbox (badness 1584) in paragraph at lines 41442--41445 []\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 [597] [598] Overfull \hbox (25.98041pt too wide) in paragraph at lines 41580--41580 []\T1/pcr/m/n/9 is.symlink <- function(paths) isTRUE(nzchar(Sys.readlink(paths ), keepNA=TRUE))[] [599] Overfull \hbox (19.22812pt too wide) in paragraph at lines 41661--41661 []\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 [600] [601] [602] Underfull \hbox (badness 1082) in paragraph at lines 41806--41809 []\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 Underfull \hbox (badness 10000) in paragraph at lines 41833--41835 [][][]\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 [603] [604] [605] Underfull \hbox (badness 1038) in paragraph at lines 41999--42002 []\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 [606] [607] [608] [609] [610] Underfull \hbox (badness 1442) in paragraph at lines 42364--42368 \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 = [611] [612] [613] [614] Underfull \hbox (badness 4096) in paragraph at lines 42618--42621 []\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 , [615] Underfull \hbox (badness 7888) in paragraph at lines 42732--42736 []\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) > [616] [617] [618] Overfull \hbox (63.78036pt too wide) in paragraph at lines 42894--42894 [] \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 42896--42896 [] \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 42898--42898 [] \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 42911--42913 []\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 [619] Underfull \hbox (badness 10000) in paragraph at lines 42991--42994 [][][]\T1/pcr/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . [620] [621] Underfull \hbox (badness 3872) in paragraph at lines 43109--43112 []\T1/ptm/m/n/10 Duncan Tem-ple Lang (2001) \T1/ptm/m/it/10 Top-level Task Call -backs in R\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / developer . [622] Underfull \hbox (badness 5475) in paragraph at lines 43175--43179 [][][]\T1/pcr/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/pcr/m/n/10 https : / / [623] [624] [625] [626] [627] [628] Underfull \hbox (badness 1655) in paragraph at lines 43598--43605 \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 43606--43611 []\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 43606--43611 \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 [629] Underfull \hbox (badness 4467) in paragraph at lines 43656--43665 []\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 43656--43665 \T1/ptm/m/n/10 lected Ol-son/IANA database. The system-specific lo-ca-tion in t he file sys-tem varies, [630] Underfull \hbox (badness 1337) in paragraph at lines 43759--43767 \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 43768--43771 []\T1/ptm/m/n/10 `Because the time zone iden-ti-fier is ex-tracted from the sym -link tar-get name of [631] Underfull \hbox (badness 3460) in paragraph at lines 43824--43827 [][][]$\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 43828--43830 [][][]$\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 43837--43837 []\T1/pcr/m/n/9 ## typically some acronyms/aliases such as "UTC", "NZ", "MET", "Eire", ..., but[] [632] [633] [634] [635] [636] Overfull \hbox (15.18042pt too wide) in paragraph at lines 44180--44180 []\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 44182--44182 []\T1/pcr/m/n/9 power.t.test(20, 1, power=0.8, sd=NULL) ##--> showing the ncp root finding:[] [637] [638] Overfull \hbox (84.78088pt too wide) in paragraph at lines 44282--44282 [] \T1/pcr/m/n/10 getOption("deparse .max.lines", -1L)))[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 44284--44284 [] \T1/pcr/m/n/10 getOption("deparse .max.lines", -1L)))[] [639] [640] [641] Underfull \hbox (badness 6542) in paragraph at lines 44558--44560 []\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 [642] [643] Overfull \hbox (30.78088pt too wide) in paragraph at lines 44677--44677 []\T1/pcr/m/n/10 trimws(x, which = c("both", "left", "right"), whitespace = "[ \t\r\n]") [644] Underfull \hbox (badness 1708) in paragraph at lines 44745--44753 []\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 44745--44753 \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 [645] Underfull \hbox (badness 4859) in paragraph at lines 44785--44790 [][][]\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; [646] Underfull \hbox (badness 3895) in paragraph at lines 44847--44859 []\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 44847--44859 \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 , [647] [648] [649] [650] [651] Overfull \hbox (9.78043pt too wide) in paragraph at lines 45195--45195 []\T1/pcr/m/n/9 ll <- list(as.name("sinc"), quote( a + b ), 1:10, letters, exp ression(1+x))[] [652] [653] Underfull \hbox (badness 1137) in paragraph at lines 45289--45296 []\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 [654] [655] [656] [657] [658] Overfull \hbox (4.38043pt too wide) in paragraph at lines 45667--45667 []\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 45676--45676 []\T1/pcr/m/n/9 system(paste("od -x", foo)) # 2-byte units, correct on little- endian platforms[] [659] Underfull \hbox (badness 2057) in paragraph at lines 45742--45748 [][][]\T1/pcr/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/pcr/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , Underfull \hbox (badness 3861) in paragraph at lines 45751--45756 [][][]\T1/pcr/m/n/10 dir.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 di r.exists[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 normalizePath[][][][]\T1/ ptm/m/n/10 , [][][]\T1/pcr/m/n/10 path.expand[][][][]\T1/ptm/m/n/10 , [][][]\T1 /pcr/m/n/10 pipe[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Sys.glob[][][][]\ T1/ptm/m/n/10 , [660] Overfull \hbox (36.7804pt too wide) in paragraph at lines 45844--45844 []\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[] [661] Underfull \hbox (badness 1803) in paragraph at lines 45907--45910 []\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 45911--45917 []\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 [662] [663] [664] [665] Underfull \hbox (badness 3668) in paragraph at lines 46140--46142 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [666] Overfull \hbox (36.78088pt too wide) in paragraph at lines 46246--46246 [] \T1/pcr/m/n/10 header = ngettext(n, "Warning message:\n", "Warning mes sages:\n"),[] [667] Overfull \hbox (4.38043pt too wide) in paragraph at lines 46321--46321 []\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 46329--46329 []\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 ...[] [668] Underfull \hbox (badness 1783) in paragraph at lines 46394--46396 []\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., [669] Overfull \hbox (25.98041pt too wide) in paragraph at lines 46424--46424 []\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 46436--46436 []\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 46439--46439 []\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[] [670] Underfull \hbox (badness 10000) in paragraph at lines 46501--46506 []\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 46501--46506 []\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 [671] Underfull \hbox (badness 2818) in paragraph at lines 46597--46603 []\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 [672] Overfull \hbox (15.18042pt too wide) in paragraph at lines 46632--46632 []\T1/pcr/m/n/9 ## Find the first occurrence, i.e. the first TRUE, if there is at least one:[] [673] [674] [675] [676] [677] [678] Underfull \hbox (badness 2846) in paragraph at lines 47091--47095 []\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 [679] Overfull \hbox (4.38043pt too wide) in paragraph at lines 47131--47131 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char acter vector[] Underfull \hbox (badness 3209) in paragraph at lines 47152--47156 []\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 [680]) (./compiler-pkg.tex Chapter 2. [681] Underfull \hbox (badness 2884) in paragraph at lines 106--120 []\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 106--120 \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 [682] [683] [684]) (./datasets-pkg.tex Chapter 3. [685] [686] [687] [688] [689] Overfull \hbox (15.18042pt too wide) in paragraph at lines 301--301 [] \T1/pcr/m/n/9 plot(ff, data = anscombe, col = "red", pch = 21, bg = "orang e", cex = 1.2,[] [690] 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)[] Underfull \vbox (badness 1472) has occurred while \output is active [691] [692] [693] [694] Overfull \hbox (4.38043pt too wide) in paragraph at lines 617--617 [] \T1/pcr/m/n/9 start = c(lrc = log(.35)), algorithm = "plinear", t race = TRUE)[] [695] Underfull \hbox (badness 4779) in paragraph at lines 704--707 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [696] [697] Underfull \hbox (badness 4779) in paragraph at lines 837--840 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [698] [699] [700] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [701] Underfull \hbox (badness 4779) in paragraph at lines 1152--1155 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [702] [703] [704] [705] [706] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1464--1464 []\T1/pcr/m/n/9 plot(names(te), te, type = "h", main = f.tit, xlab = "Eruption time (sec)")[] [707] [708] Underfull \hbox (badness 10000) in paragraph at lines 1549--1552 []\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 1549--1552 []\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 [709] [710] [711] Underfull \hbox (badness 4779) in paragraph at lines 1738--1741 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [712] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1832--1832 []\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 1840--1840 [] \T1/pcr/m/n/9 model3 <- clogit(case ~ spontaneous+induced+strata(stratum), data = infert)[] [713] [714] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1956--1956 [] \T1/pcr/m/n/9 sub(" W.",".Width", dn i3[[2]])))),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1957--1957 [] \T1/pcr/m/n/9 Species = gl(3, 50, labels = sub("S", "s", sub("V", "v", d ni3[[3]]))))[] [715] [716] [717] [718] Underfull \hbox (badness 4779) in paragraph at lines 2160--2163 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [719] [720] [721] Overfull \vbox (4.29591pt too high) has occurred while \output is active [722] [723] [724] [725] [726] Underfull \hbox (badness 4779) in paragraph at lines 2725--2728 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [727] Overfull \vbox (13.87083pt too high) has occurred while \output is active [728] Underfull \vbox (badness 2376) has occurred while \output is active [729] [730] [731] [732] [733] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3154--3154 []\T1/pcr/m/n/9 pairs(quakes, main = "Fiji Earthquakes, N = 1000", cex.main = 1.2, pch = ".")[] [734] [735] [736] [737] [738] [739] Overfull \hbox (47.58038pt too wide) in paragraph at lines 3505--3505 []\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 3507--3507 []\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 3508--3508 []\T1/pcr/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis t.html#Geographic%20Centers[] [740] [741] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3639--3639 [] \T1/pcr/m/n/9 ## The yearly series *is* close to the averages of t he monthly one:[] [742] [743] [744] Underfull \hbox (badness 4779) in paragraph at lines 3787--3790 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [745] [746] [747] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3996--3996 [] \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of supplement")[] Underfull \hbox (badness 10000) in paragraph at lines 4034--4036 []\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 4034--4036 \T1/pcr/m/n/10 20110523225828 / http : / / www . ltrr . arizona . edu / ~hallma n / sitephotos / [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761]) (./grDevices-pkg.tex [762] Chapter 4. [763] [764] [765] [766] Underfull \hbox (badness 4752) in paragraph at lines 298--303 []\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/p tm/m/n/10 in [767] [768] [769] [770] Overfull \hbox (6.78088pt too wide) in paragraph at lines 519--519 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d .pdf",[] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] Underfull \hbox (badness 5175) in paragraph at lines 1193--1195 []\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 [781] [782] [783] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1364--1364 []\T1/pcr/m/n/9 zapsmall(lab <- convertColor(cols, from = "sRGB", to = "Lab", scale.in = 255))[] [784] [785] [786] Underfull \hbox (badness 3302) in paragraph at lines 1625--1629 []\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 1625--1629 []\T1/pcr/m/n/10 c("LinearGradient", "RadialGradient", "TilingPattern") [787] [788] [789] [790] [791] Underfull \hbox (badness 1565) in paragraph at lines 1916--1921 []\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 1916--1921 \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 [792] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1999--1999 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res = 72,[] [793] Underfull \hbox (badness 1184) in paragraph at lines 2040--2050 []\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 2040--2050 []\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 , [794] Underfull \hbox (badness 10000) in paragraph at lines 2152--2154 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [795] [796] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2288--2288 []\T1/pcr/m/n/10 embedGlyphs(file, glyphInfo, outfile = file, options = charac ter())[] [797] Underfull \hbox (badness 6758) in paragraph at lines 2338--2341 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [798] [799] Underfull \hbox (badness 2326) in paragraph at lines 2456--2466 []\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 2456--2466 \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 2456--2466 \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 2456--2466 []\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 [800] [801] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2559--2559 []\T1/pcr/m/n/9 dragplot <- function(..., xlim = NULL, ylim = NULL, xaxs = "r" , yaxs = "r") {[] Underfull \vbox (badness 10000) has occurred while \output is active [802] [803] [804] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2815--2815 []\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 2816--2816 []\T1/pcr/m/n/10 grey.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re v = FALSE)[] [805] [806] [807] [808] [809] Underfull \hbox (badness 10000) in paragraph at lines 3089--3090 Underfull \vbox (badness 10000) has occurred while \output is active [810] [811] [812] [813] [814] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3422--3422 []\T1/pcr/m/n/10 colorConverter(toXYZ, fromXYZ, name, white = NULL, vectorized = FALSE)[] [815] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3506--3506 []\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 3507--3507 []\T1/pcr/m/n/9 (hex <- convertColor(luv, from = "Luv", to = hexcolor, scale. out = NULL))[] [816] [817] [818] Underfull \hbox (badness 10000) in paragraph at lines 3665--3671 []\T1/pcr/m/n/10 nclass.FD []\T1/ptm/m/n/10 uses the Freedman-Diaconis choice b ased on the inter-quartile range [819] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3740--3740 []\T1/pcr/m/n/10 palette.colors(n = NULL, palette = "Okabe-Ito", alpha, recycl e = FALSE)[] [820] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3824--3824 []\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 3844--3844 []\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 3851--3851 [] \T1/pcr/m/n/9 matplot(x, type = "l", lwd = 4, lty = 1, col = 1:8, ylab = "", main=main)[] [821] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3907--3907 []\T1/pcr/m/n/10 hcl.colors(n, palette = "viridis", alpha = NULL, rev = FALSE, fixup = TRUE) [822] Underfull \hbox (badness 8170) in paragraph at lines 3936--3939 []\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 , [823] Underfull \hbox (badness 2189) in paragraph at lines 3997--4002 []\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, Underfull \hbox (badness 10000) in paragraph at lines 4035--4039 \T1/pcr/m/n/10 wikipedia . org / w / index . php ? title = HCL _ color _ space & oldid = 883465135$[][]\T1/ptm/m/n/10 . [824] Underfull \vbox (badness 10000) has occurred while \output is active [825] Underfull \hbox (badness 5260) in paragraph at lines 4165--4168 []\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 [826] [827] [828] [829] [830] Underfull \hbox (badness 5939) in paragraph at lines 4504--4509 []\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 , [831] [832]pdfTeX warning (ext4): destination with the same identifier (name{Rf n.symbol}) has been already used, duplicate ignored \relax l.4681 \aliasA{symbol}{plotmath}{symbol} [833] [834] [835] [836] [837] [838] Overfull \hbox (60.78088pt too wide) in paragraph at lines 5025--5025 [] \T1/pcr/m/n/10 compression = c("none", "rle", "lzw", "jpeg", "zip", "lz w+p", "zip+p"),[] [839] [840] Underfull \hbox (badness 1348) in paragraph at lines 5231--5234 []\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 [841] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5255--5255 []\T1/pcr/m/n/9 ## Not run: dev.print(png, file = "myplot.png", width = 1024, height = 768)[] Underfull \hbox (badness 7522) in paragraph at lines 5296--5302 []\T1/ptm/m/n/10 For use with []\T1/pcr/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a []\T1/pcr/m/n/10 printf []\T1/ptm/m/n/10 for-mat such as [842] Underfull \hbox (badness 1112) in paragraph at lines 5329--5333 []\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" [843] [844] Underfull \hbox (badness 1755) in paragraph at lines 5473--5475 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [845] [846] Underfull \hbox (badness 7344) in paragraph at lines 5653--5655 []\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 5664--5668 [][][]\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 [847] [848] Underfull \hbox (badness 1552) in paragraph at lines 5791--5800 []\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 5791--5800 []\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 5791--5800 []\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 5801--5803 []\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 5833--5839 []\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 [849] Underfull \hbox (badness 5388) in paragraph at lines 5859--5861 []\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 / [850] [851] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5963--5963 []\T1/pcr/m/n/9 ## time ranges in diverse scales:% also in ../../../../tests/r eg-tests-1c.R[] [852] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6075--6075 []\T1/pcr/m/n/10 quartz.save(file, type = "png", device = dev.cur(), dpi = 100 , ...)[] [853] [854] Underfull \hbox (badness 10000) in paragraph at lines 6162--6164 []\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 [855] [856] [857] [858] [859] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6529--6529 []\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 6543--6546 []\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 [860] [861] [862] [863] [864] [865] Overfull \hbox (0.78088pt too wide) in paragraph at lines 6878--6878 []\T1/pcr/m/n/10 windows(width, height, pointsize, record, rescale, xpinch, yp inch, Overfull \hbox (0.78088pt too wide) in paragraph at lines 6885--6885 []\T1/pcr/m/n/10 win.metafile(filename = "", width = 7, height = 7, pointsize = 12,[] [866] [867] [868] [869] Underfull \hbox (badness 10000) in paragraph at lines 7151--7156 []\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 7151--7156 []\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 7151--7156 []\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 [870] Overfull \hbox (36.7804pt too wide) in paragraph at lines 7257--7257 []\T1/pcr/m/n/9 windows() # make sure we have the right device type (availabl e on Windows only)[] [871] Underfull \hbox (badness 3590) in paragraph at lines 7296--7299 []\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 7296--7299 \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 7307--7307 [] \T1/pcr/m/n/10 fonts, family, xpos, ypos, title, type, antialias, symbol family)[] [872] Underfull \hbox (badness 1189) in paragraph at lines 7372--7374 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [873] Underfull \hbox (badness 10000) in paragraph at lines 7477--7479 []\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [874] Underfull \hbox (badness 10000) in paragraph at lines 7523--7530 []\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 7523--7530 []\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 [875] Underfull \hbox (badness 5607) in paragraph at lines 7607--7611 []\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 [876] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7659--7659 [] \T1/pcr/m/n/9 function(...) grDevices::X11.options(width = 8, height = 6, xpos = 0,[] [877] [878] Underfull \hbox (badness 5637) in paragraph at lines 7791--7797 []\T1/pcr/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Helvetica" []\T1 /ptm/m/n/10 (the de-fault), []\T1/pcr/m/n/10 "Helvetica-Narrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1721) in paragraph at lines 7824--7827 []\T1/ptm/m/n/10 Windows users can make use of Win-FIG ([][]$\T1/pcr/m/n/10 htt p : / / www . schmidt-[]web-[]berlin . de / [879] [880] Overfull \hbox (63.78036pt too wide) in paragraph at lines 7959--7959 []\T1/pcr/m/n/9 op <- options(warn = 2)# ==> warnings would be errors, we supp ress the one "we know":[] [881] Underfull \hbox (badness 1231) in paragraph at lines 7998--8000 []\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 [882] [883]) (./graphics-pkg.tex [884] Chapter 5. Underfull \hbox (badness 4647) in paragraph at lines 16--18 []\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 = [885] [886] [887] [888] [889] [890] [891] Overfull \hbox (6.05087pt too wide) in paragraph at lines 450--450 [] \T1/pcr/m/n/10 gap.axis <- if(perpendicular(side, las)) 0.25 else 1[] Underfull \hbox (badness 4048) in paragraph at lines 482--488 []\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 [892] [893] Overfull \hbox (47.58038pt too wide) in paragraph at lines 580--580 []\T1/pcr/m/n/9 ## now shrink the window (in x- and y-direction) and observe t he axis labels drawn[] [894] Overfull \hbox (15.18042pt too wide) in paragraph at lines 692--692 []\T1/pcr/m/n/9 axis.Date(3, at = as.integer(as.Date("2023-04-01")), col.axis = "darkgreen")[] [895] Overfull \hbox (15.18042pt too wide) in paragraph at lines 707--707 []\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 712--712 []\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 713--713 [] \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 719--719 []\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 746--750 []\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 746--750 [][][]\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 [896] [897] Overfull \hbox (4.38043pt too wide) in paragraph at lines 833--833 [] \T1/pcr/m/n/9 axp = c(get_axp(usr.i), n = 3), log = TRUE, n intLog = 5))[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 870--870 [] \T1/pcr/m/n/10 add = FALSE, ann = !add && par("ann"), args.legend = NULL, ...)[] [898] [899] Underfull \hbox (badness 10000) in paragraph at lines 1017--1021 [][][]\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. [900] Overfull \hbox (133.98029pt too wide) in paragraph at lines 1034--1034 [] \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 1036--1036 []\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 1038--1038 []\T1/pcr/m/n/9 mosaicplot(xt[,,"Male"], main = "mosaicplot(Freq ~ Class + Sur vived, *)", color=TRUE)[] Underfull \vbox (badness 10000) has occurred while \output is active [901] [902] [903] [904] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1322--1322 []\T1/pcr/m/n/9 # *add* notches (somewhat funny here <--> warning "notches .. outside hinges"):[] [905] [906] [907] Underfull \hbox (badness 2503) in paragraph at lines 1484--1493 \T1/ptm/m/n/10 when []\T1/pcr/m/n/10 horizontal []\T1/ptm/m/n/10 is false, and []\T1/pcr/m/n/10 xlim []\T1/ptm/m/n/10 hor-i-zon-tally. []\T1/pcr/m/n/10 xaxt[] \T1/ptm/m/n/10 , []\T1/pcr/m/n/10 yaxt[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3375) in paragraph at lines 1519--1521 []\T1/ptm/m/n/10 whisker line type (de-fault: []\T1/pcr/m/n/10 "dashed"[]\T1/pt m/m/n/10 ), [908] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1593--1593 []\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 1594--1594 []\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 1600--1600 []\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 1601--1601 [] \T1/pcr/m/n/9 medlwd = 3, medcol = "white", whisklty = 3, outl ty = 1, outpch = NA)[] [909] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1634--1634 [] \T1/pcr/m/n/10 yaxlabels = NULL, xlim = NULL, ylim = c(0, 1), weights = NU LL, ...)[] [910] [911] [912] [913] Underfull \hbox (badness 10000) in paragraph at lines 1907--1913 [][][]\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 [914] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1927--1927 []\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 1939--1939 []\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 1955--1955 []\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 1964--1964 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = "" , ylab = "")[] [915] [916] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2049--2049 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col umns, [917] [918] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2178--2178 []\T1/pcr/m/n/9 coplot(lat ~ long | depth, data = quakes, given.values = given .depth, rows = 1)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2183--2183 []\T1/pcr/m/n/9 coplot(ll.dm, data = quakes, number = c(4, 7), show.given = c( TRUE, FALSE))[] [919] [920] Overfull \hbox (18.78088pt too wide) in paragraph at lines 2357--2357 []\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 2358--2358 [] \T1/pcr/m/n/10 ann = par("ann"), xaxt = par("xaxt"), frame.plot = T RUE, log = "",[] [921] Underfull \hbox (badness 1430) in paragraph at lines 2388--2390 []\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 [922] Overfull \hbox (78.78088pt too wide) in paragraph at lines 2469--2469 [] \T1/pcr/m/n/10 color.palette = function(n) hcl.colors(n, "YlO rRd", rev = TRUE),[] Underfull \hbox (badness 1009) in paragraph at lines 2481--2488 \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 [923] Underfull \hbox (badness 7273) in paragraph at lines 2563--2567 [][][]\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 [924] [925] [926] [927] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2811--2811 []\T1/pcr/m/n/9 ## maybe change the desired number of tick marks: par(lab = c (mx, my, 7))[] [928] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2848--2848 [] \T1/pcr/m/n/10 density = NULL, angle = 45, col = "lightgray", border = NULL,[] [929] [930] Underfull \hbox (badness 1226) in paragraph at lines 2975--2979 \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 [931] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3028--3028 []\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 3032--3032 []\T1/pcr/m/n/9 length(hh$breaks) ## typically 1 million -- though 1e6 was "a suggestion only"[] [932] Underfull \hbox (badness 10000) in paragraph at lines 3094--3097 [][][]\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 Overfull \hbox (15.18042pt too wide) in paragraph at lines 3145--3145 []\T1/pcr/m/n/9 ## The default fuzz in hist.default() "kills" this, with a "w rong" message:[] [933] [934] [935] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3309--3309 []\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 3314--3314 [] \T1/pcr/m/n/9 ans <- identify(x[!sel], y[!sel], labels = which(!sel) , n = 1, plot = plot, ...)[] [936] [937] Underfull \hbox (badness 10000) in paragraph at lines 3456--3461 []\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 3456--3461 [][][]\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 3456--3461 [][][]\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 3491--3491 []\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 3493--3493 []\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 3496--3496 [] \T1/pcr/m/n/9 axis(side, at=at, labels=as.character(j+1L), col="gray ", col.axis=1, ...)[] [938] [939] [940] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3653--3653 []\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 3672--3672 [] \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 3676--3676 [] \T1/pcr/m/n/10 text.font = NULL, merge = do.lines && has.pch, trace = FALSE,[] [941] [942] [943] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3861--3861 [] \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 3862--3862 [] \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 3866--3866 [] \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 3876--3876 [] \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)",[] [944] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3907--3907 [] \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 3933--3933 []\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 3935--3935 []\T1/pcr/m/n/9 legend("topright", rownames(VADeaths), fill = gray.colors(nrow (VADeaths)))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3946--3946 []\T1/pcr/m/n/9 legend("bottomright", paste("sin(", 1:7, "pi * x)"), col = 1:7 , lty = 1:7,[] Underfull \vbox (badness 10000) has occurred while \output is active [945] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3961--3961 []\T1/pcr/m/n/9 legend(.4,1, "sin(c x)", pch = 21, pt.bg = "white", lty = 1, c ol = "blue")[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 3969--3969 []\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 3971--3971 []\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 3979--3979 [] \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 3989--3989 []\T1/pcr/m/n/9 legend("bottomleft", c("This legend", "has", "optimally sized" , "columns."),[] [946] Underfull \hbox (badness 10000) in paragraph at lines 4051--4055 [][][]\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% [947] [948] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4163--4163 [] \T1/pcr/m/n/10 log = "", ..., add = FALSE, verbose = getOption("verb ose"))[] [949] [950] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4317--4317 []\T1/pcr/m/n/9 nd <- length(dv <- seq(as.Date("1959-02-21"), by = "weeks", le ngth.out = 100))[] [951] Underfull \hbox (badness 3930) in paragraph at lines 4396--4398 []\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 [952] [953] [954] [955] [956] Underfull \hbox (badness 1286) in paragraph at lines 4707--4710 []\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 4715--4720 []\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 [957] [958] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4811--4811 []\T1/pcr/m/n/9 pairs(USJudgeRatings, lower.panel = panel.smooth, upper.panel = panel.cor,[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4816--4816 [] \T1/pcr/m/n/9 main = "Lengths and Widths in [log]", line.main=1.5, oma =c(2,2,3,2))[] [959] Underfull \hbox (badness 1264) in paragraph at lines 5007--5020 \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 , [960] [961] [962] [963] Underfull \hbox (badness 10000) in paragraph at lines 5273--5276 [964 ] Underfull \hbox (badness 10000) in paragraph at lines 5334--5336 [965 ] [966] [967] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5580--5580 []\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 5581--5581 [] \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 [968] [969] [970] [971] [972] [973] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5945--5945 []\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 5946--5946 [] \T1/pcr/m/n/9 init.angle = 315, col = c("deepskyblue", "yellow", "yellow 3"), border = FALSE)[] [974]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot }) has been already used, duplicate ignored \relax l.6005 \aliasA{plot}{plot.default}{plot} [975] [976] [977] [978] [979] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6337--6337 []\T1/pcr/m/n/9 plot(weight ~ group, data = PlantGrowth) # numeric v ector ~ factor[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6343--6343 []\T1/pcr/m/n/9 plot(PlantGrowth$group, axes = FALSE, main = "no axes") # ext remely silly[] [980] [981] Overfull \hbox (66.78088pt too wide) in paragraph at lines 6467--6467 [] \T1/pcr/m/n/10 main = paste("Histogram of", paste(x$xname, co llapse = "\n")),[] [982] [983] [984] [985] Underfull \hbox (badness 10000) in paragraph at lines 6772--6774 []\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see [986] [987] Underfull \hbox (badness 1028) in paragraph at lines 6866--6868 []\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 Overfull \hbox (31.57222pt too wide) in paragraph at lines 6909--6910 [][] [988 ] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7003--7003 []\T1/pcr/m/n/9 plot(x, sin(x), type = "o", pch = 21, bg = par("bg"), col = "b lue", cex = .6,[] [989] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7034--7034 [] \T1/pcr/m/n/9 plot(rx, ry, type = "n", axes = FALSE, xlab = "", ylab = "", main = main)[] Underfull \vbox (badness 10000) has occurred while \output is active [990] [991] Underfull \hbox (badness 10000) in paragraph at lines 7156--7158 []\T1/ptm/m/n/10 The code im-ple-ment-ing poly-gon shad-ing was do-nated by Kev in Buhr Overfull \hbox (15.18042pt too wide) in paragraph at lines 7183--7183 [] \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 7189--7189 []\T1/pcr/m/n/9 yy <- c(c(0, cumsum(stats::rnorm(n))), rev(c(0, cumsum(stats:: rnorm(n)))))[] [992] Underfull \hbox (badness 2600) in paragraph at lines 7246--7248 []\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 [993] [994] [995] [996] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7478--7478 []\T1/pcr/m/n/9 rect(100+i, 300+i, 150+i, 380+i, col = rainbow(11, start = 0.7 , end = 0.1))[] [997] [998] [999] [1000] [1001] [1002] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7865--7865 []\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 7869--7869 []\T1/pcr/m/n/9 ## label the 20 very lowest-density points,the "outliers" (wit h obs.number):[] [1003] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7881--7881 []\T1/pcr/m/n/9 pairs(y, panel = function(...) smoothScatter(..., nrpoints = 0 , add = TRUE),[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 7908--7908 [] \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 7917--7917 [] \T1/pcr/m/n/10 subset = NULL, weights = NULL, drop.unused.levels = FALSE)[] [1004] [1005] [1006] [1007] [1008] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8234--8234 []\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 8237--8237 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi us = FALSE,[] [1009] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8241--8241 [] \T1/pcr/m/n/9 draw.segments = TRUE, col.segments = 0, col.stars = 1:10 , key.loc = 0:1,[] [1010] [1011] Overfull \hbox (30.78088pt too wide) in paragraph at lines 8412--8412 []\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 8413--8413 []\T1/pcr/m/n/10 strheight(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...)[] [1012] [1013] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8517--8517 []\T1/pcr/m/n/10 sunflowerplot(formula, data = NULL, xlab = NULL, ylab = NULL, ...,[] [1014] Underfull \hbox (badness 1112) in paragraph at lines 8576--8580 []\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 [1015] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8636--8636 []\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 8651--8651 []\T1/pcr/m/n/9 sunflowerplot(rnorm(100), rnorm(100), number = rpois(n = 100, lambda = 2),[] [1016] [1017] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8788--8788 []\T1/pcr/m/n/9 text(x, y, apply(format(round(z3, digits = 2)), 1, paste, coll apse = ","),[] [1018] [1019] [1020] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8973--8973 [] \T1/pcr/m/n/9 "Le français, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est façile: Règles, Liberté, Egalité, Fraternité...")[] Underfull \hbox (badness 1215) in paragraph at lines 9001--9003 []\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", Underfull \hbox (badness 1584) in paragraph at lines 9035--9041 []\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 [1021]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9083 \HeaderA{units}{Graphical Units}{units} pdfTeX warning (ext4): destinatio n with the same identifier (name{Rfn.units.1}) has been already used, duplicate ignored \relax l.9083 \HeaderA{units}{Graphical Units}{units} [1022] Underfull \hbox (badness 1205) in paragraph at lines 9148--9150 []\T1/ptm/m/n/10 vectors con-tain-ing the co-or-di-nates of the ver-tices of th e poly-gon. See [1023] [1024] Overfull \hbox (25.98041pt too wide) in paragraph at lines 9267--9267 []\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)[] [1025]) (./grid-pkg.tex [1026] Chapter 6. [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] Underfull \hbox (badness 4859) in paragraph at lines 634--637 []\T1/ptm/m/n/10 Modification of the view-port (should all be valid ar-gu-ments to the [1037] [1038] [1039] [1040] [1041] [1042] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1028--1028 [] \T1/pcr/m/n/9 width=unit(1, "inches"), height=un it(1, "inches")))[] [1043] [1044] [1045] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1239--1239 [] \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 1240--1240 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="B"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1241--1241 [] \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 1242--1242 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="C"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1243--1243 [] \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 1244--1244 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="D")),[] [1046] [1047] [1048] [1049] Underfull \hbox (badness 3219) in paragraph at lines 1503--1506 []\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 [1050] [1051] [1052] [1053] [1054] [1055] [1056] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1891--1891 [] \T1/pcr/m/n/9 do.call("grid.curve", c(list(x1=.25, y1=.25, x2=.75, y2=.75) , list(...)))[] [1057] [1058] [1059] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2105--2105 []\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 2106--2106 []\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 2107--2107 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.75, y=.25, gp=gpar(fill="whi te"), name="r3")[] [1060] Underfull \hbox (badness 2961) in paragraph at lines 2142--2147 []\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 , [1061] Underfull \hbox (badness 4479) in paragraph at lines 2230--2233 []\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 [1062] [1063] [1064] Underfull \hbox (badness 2894) in paragraph at lines 2437--2444 []\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 [1065] [1066] [1067] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2593--2593 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = FALSE)[] [1068] Underfull \hbox (badness 1014) in paragraph at lines 2679--2684 []\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 [1069] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2725--2725 []\T1/pcr/m/n/10 grid.grabExpr(expr, warn = 2, wrap = wrap.grobs, wrap.grobs = FALSE,[] [1070] [1071] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2887--2887 [] \T1/pcr/m/n/9 children=gList(grob(name="child", vp ="vp1::vp2")),[] [1072] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2919--2919 [] \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp = NULL)[] [1073] [1074] Underfull \hbox (badness 10000) in paragraph at lines 3102--3104 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1075] Underfull \hbox (badness 1077) in paragraph at lines 3119--3138 []\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 3119--3138 []\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 3119--3138 []\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 , [1076] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3191--3191 [] \T1/pcr/m/n/9 mask <- as.mask(rectGrob(gp=gpar(col=NA, fill="grey50")), ty pe="luminance")[] [1077] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3307--3307 [] \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1 , "inches"),[] [1078] [1079] [1080] [1081] [1082] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3622--3622 [] \T1/pcr/m/n/9 children=vpList(viewpor t(name="vp2"))))[] [1083] [1084] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3718--3718 []\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 3755--3761 []\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 [1085] [1086] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3847--3847 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3854--3854 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] [1087] [1088] [1089] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4055--4055 [] \T1/pcr/m/n/9 "Nested rectangles, outer clockwise, inner ant i-clockwise")[] [1090] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4070--4070 [] \T1/pcr/m/n/9 "Overlapping rectangles, one clockwise, other anti-clockwise")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4091--4091 []\T1/pcr/m/n/9 # Not specifying pathId will treat all points as part of the s ame path, thus[] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] Underfull \hbox (badness 1067) in paragraph at lines 4840--4843 []\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 [1103] [1104] [1105] [1106] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5056--5056 [] \T1/pcr/m/n/9 width=unit(1, "inches"), height=un it(1, "inches")))[] [1107] [1108] Underfull \hbox (badness 7256) in paragraph at lines 5191--5193 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1109] Overfull \hbox (69.18036pt too wide) in paragraph at lines 5258--5258 []\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),[] [1110] [1111] [1112] [1113] [1114] [1115] Underfull \hbox (badness 2726) in paragraph at lines 5645--5649 []\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 5645--5649 \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 [1116] Underfull \hbox (badness 2080) in paragraph at lines 5727--5732 []\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 [1117] [1118] [1119] Underfull \hbox (badness 10000) in paragraph at lines 5907--5909 []\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 [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7002--7002 []\T1/pcr/m/n/9 unitType(min(unit(1, "in"), unit(1, "npc") + unit(1, "mm")), r ecurse=TRUE)[] [1137] [1138] Overfull \hbox (54.78088pt too wide) in paragraph at lines 7122--7122 []\T1/pcr/m/n/10 viewportTransform(group, shear=groupShear(), flip=groupFlip() , device=TRUE) [1139] Underfull \hbox (badness 1867) in paragraph at lines 7224--7226 []\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 [1140] Underfull \hbox (badness 10000) in paragraph at lines 7261--7267 [][][]\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 , [1141] [1142] [1143] Underfull \vbox (badness 10000) has occurred while \output is active [1144] [1145] [1146] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7597--7597 []\T1/pcr/m/n/9 invisible(lapply(trace, function(t) grid.lines(t$x, t$y, gp=gp ar(col="red"))))[] [1147]) (./methods-pkg.tex [1148] Chapter 7. [1149] [1150] Underfull \hbox (badness 1688) in paragraph at lines 166--171 []\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 [1151] [1152] [1153] Underfull \hbox (badness 1348) in paragraph at lines 392--395 [][][]\T1/pcr/m/n/10 GroupGenericFunctions[][][] []\T1/ptm/m/n/10 for other in- for-ma-tion about group generic func-tions; [][]Meth- [1154] [1155] Overfull \hbox (15.18042pt too wide) in paragraph at lines 558--558 []\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 568--568 []\T1/pcr/m/n/9 ## For arithmetic and one rnum with anything, callNextMethod w ith no arguments[] [1156] Overfull \hbox (4.38043pt too wide) in paragraph at lines 619--619 []\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 [1157] Overfull \hbox (25.98041pt too wide) in paragraph at lines 637--637 []\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 640--640 []\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 657--657 []\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 672--672 []\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 [1158] [1159] [1160] [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1794--1794 []\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 1796--1796 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i, TRUE), c(1:10, 1+1i, TRUE)) ) # the default[] [1173] [1174] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\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 [1175] [1176] [1177] Underfull \hbox (badness 1478) in paragraph at lines 2213--2218 []\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 = [1178] [1179] Underfull \hbox (badness 10000) in paragraph at lines 2327--2331 []\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 [1180] [1181] [1182] Underfull \hbox (badness 3792) in paragraph at lines 2573--2576 []\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 Underfull \hbox (badness 1194) in paragraph at lines 2604--2608 []\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 [1183] Overfull \hbox (24.78088pt too wide) in paragraph at lines 2660--2660 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin g(where))[] [1184] [1185] [1186] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2879--2879 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers ions visible:[] [1187] [1188] [1189] [1190] [1191] [1192] [1193] Underfull \hbox (badness 10000) in paragraph at lines 3402--3407 []\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 3402--3407 []\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 [1194] [1195] Underfull \hbox (badness 10000) in paragraph at lines 3530--3534 []\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 [1196] Overfull \hbox (14.78088pt too wide) in paragraph at lines 3641--3650 [] [1197] [1198] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/pcr/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = Underfull \hbox (badness 10000) in paragraph at lines 3808--3809 []\T1/pcr/m/n/10 setMethod("plot", c("Pos", "missing"), function(x, y, ...) { [1199] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/pcr/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , Underfull \hbox (badness 6157) in paragraph at lines 3907--3911 []\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 [1200] [1201] [1202] [1203] [1204] [1205] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4312--4312 []\T1/pcr/m/n/10 makeClassRepresentation(name, slots=list(), superClasses=char acter(), Overfull \hbox (0.78088pt too wide) in paragraph at lines 4313--4313 [] \T1/pcr/m/n/10 prototype=NULL, package, validity, ac cess,[] [1206] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4370--4370 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w here) [1207] [1208] [1209] Underfull \hbox (badness 2126) in paragraph at lines 4578--4586 []\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 , [1210] [1211] [1212] Underfull \hbox (badness 10000) in paragraph at lines 4815--4824 []\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 [1213] [1214] [1215] [1216] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5203--5203 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate inheritance[] [1217] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5231--5231 []\T1/pcr/m/n/9 stopifnot(identical(abs(y), abs(x))) # (version 2.9.0 or earli er fails here)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5245--5245 []\T1/pcr/m/n/9 ## The S3 method for classA and the closest inherited S3 metho d for classB[] Underfull \vbox (badness 10000) has occurred while \output is active [1218] [1219] Underfull \hbox (badness 10000) in paragraph at lines 5363--5364 []\T1/pcr/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...) [1220] [1221] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1222] [1223] [1224] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\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 [1225] [1226] [1227] [1228] [1229] [1230] Underfull \hbox (badness 10000) in paragraph at lines 6218--6234 []\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 [1231] [1232] Underfull \hbox (badness 1248) in paragraph at lines 6351--6355 []\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 6351--6355 \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 [1233] Underfull \hbox (badness 4647) in paragraph at lines 6506--6508 []\T1/ptm/m/n/10 This method is equiv-a-lent to call-ing the gen-er-a-tor func- tion re-turned by [1234] [1235] Underfull \hbox (badness 2875) in paragraph at lines 6655--6664 []\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 6655--6664 [][][]\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 [1236] Underfull \vbox (badness 10000) has occurred while \output is active [1237] [1238] [1239]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1240] Overfull \hbox (66.78088pt too wide) in paragraph at lines 7017--7017 []\T1/pcr/m/n/10 ## Create a new object from the class or use the replacement version of as().[] [1241] [1242] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7208--7208 []\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 7212--7212 []\T1/pcr/m/n/9 myReg <- setClass("myReg", slots = c(title = "character"), con tains = "mlm")[] [1243]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Com plex}) has been already used, duplicate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\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 [1244] Underfull \hbox (badness 6708) in paragraph at lines 7317--7329 []\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 7317--7329 []\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 7317--7329 []\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 , [1245] [1246] Underfull \hbox (badness 1694) in paragraph at lines 7480--7482 []\T1/ptm/m/n/10 name of the class or (more ef-fi-ciently) the class def-i-ni-t ion ob-ject (see Underfull \hbox (badness 10000) in paragraph at lines 7504--7507 []\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 [1247] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7525--7525 []\T1/pcr/m/n/9 selectSuperClasses("C", dropVirtual=TRUE, directOnly=FALSE)# d itto w/o "Root"[] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8630--8630 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact er(), [1261] Overfull \hbox (6.78088pt too wide) in paragraph at lines 8705--8705 [] \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class Def =,[] [1262] [1263] [1264] [1265] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8967--8967 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col umn matrices[] [1266] [1267] [1268] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9175--9175 [] \T1/pcr/m/n/9 setLoadAction(function(ns) assign("myCount", 0, envir = ns), "setCount")[] [1269] [1270] [1271] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9437--9437 []\T1/pcr/m/n/9 ## Using a short form for the signature, which matches like fo rmal arguments[] [1272] [1273] [1274] [1275] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9745--9745 []\T1/pcr/m/n/9 ## Define a new generic function to compute the residual degre es of freedom[] [1276] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9855--9855 []\T1/pcr/m/n/9 ## Not run: [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1 0] [,11] [,12][] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9866--9866 []\T1/pcr/m/n/9 ## Not run: [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1 0] [,11] [,12][] [1277] [1278] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] Underfull \hbox (badness 10000) in paragraph at lines 10564--10566 []\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 10572--10576 []\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 10572--10576 []\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 [1287] [1288] [1289]) (./parallel-pkg.tex [1290] 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 [1291] Underfull \hbox (badness 4242) in paragraph at lines 97--99 []\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 [1292] [1293] Underfull \hbox (badness 1024) in paragraph at lines 214--217 []\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 [1294] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1295] [1296] Underfull \hbox (badness 10000) in paragraph at lines 437--439 []\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 [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 1917) in paragraph at lines 771--780 []\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 771--780 []\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 [1302] Overfull \hbox (60.78088pt too wide) in paragraph at lines 864--864 [] \T1/pcr/m/n/10 mc.cleanup = TRUE, mc.allow.recursive = TRUE, affini ty.list = NULL)[] [1303] [1304] [1305] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1055--1055 []\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 1059--1059 []\T1/pcr/m/n/9 # To optimize the overall execution time elements of X are sch eduled to suitable CPUs[] [1306] [1307] Underfull \hbox (badness 5388) in paragraph at lines 1174--1179 []\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 Underfull \hbox (badness 10000) in paragraph at lines 1198--1206 []\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 [1308] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1235--1235 []\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)[] [1309] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1351--1351 [] \T1/pcr/m/n/9 as.integer(runif(N, 1, 12)), as.integer(runif (N, 1, 28)))[] [1310] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1365--1365 []\T1/pcr/m/n/9 system.time(c <- unlist(mclapply(dates, as.POSIXct, format = "%Y-%m-%d")))[] Underfull \hbox (badness 1577) in paragraph at lines 1394--1397 []\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 [1311] Underfull \hbox (badness 3375) in paragraph at lines 1441--1443 []\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 [1312] [1313]) (./splines-pkg.tex [1314] 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 [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] Overfull \hbox (4.38043pt too wide) in paragraph at lines 499--499 []\T1/pcr/m/n/9 ispl <- polySpline(interpSpline( weight ~ height, women, bSpl ine = TRUE))[] [1323] Underfull \hbox (badness 1043) in paragraph at lines 600--602 []\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 [1324] [1325] Overfull \hbox (25.98041pt too wide) in paragraph at lines 715--715 []\T1/pcr/m/n/9 Matrix::drop0(zapsmall(6*splineDesign(knots = 1:40, x = 4:37, sparse = TRUE)))[] [1326] [1327] [1328]) (./stats-pkg.tex Chapter 10. [1329] 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[] [1330] [1331] [1332] [1333] [1334] 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[] [1335] 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) [1336] [1337] [1338] [1339] [1340] [1341] Underfull \hbox (badness 1024) in paragraph at lines 887--889 []\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 [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1626--1626 [] \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 1629--1629 [] \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm = TRUE)[] [1353] [1354] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1776--1776 [] \T1/pcr/m/n/9 approx(xn, yn, xout=xout, method=M, rule=R, n a.rm=na.)$y),[] [1355] Overfull \hbox (47.58038pt too wide) in paragraph at lines 1788--1788 []\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 :[ ] [1356] [1357] [1358] [1359] [1360] [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2806--2806 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(), ma = numeric(), lag.max = r, pacf = F ALSE) [1370] [1371] [1372] [1373] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3054--3054 []\T1/pcr/m/n/9 lines(ave(breaks, wool, tension, FUN = median), type = "s", co l = "green")[] [1374] [1375] [1376] Underfull \hbox (badness 10000) in paragraph at lines 3265--3267 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Bartlett test of homo geneity of [1377] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3314--3314 []\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 3315--3315 []\T1/pcr/m/n/10 qbeta(p, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] [1378] [1379] [1380] [1381] Package amsmath Warning: Foreign command \atopwithdelims; (amsmath) \frac or \genfrac should be used instead (amsmath) on input line 3644. [1382] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3710--3710 []\T1/pcr/m/n/9 plot (k, dbinom(k, n, pi/10, log = TRUE), type = "l", ylab = " log density",[] [1383] [1384] [1385] [1386] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3989--3989 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit df = 0) [1387] [1388] [1389] [1390] [1391] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4278--4278 []\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 4279--4279 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1392] [1393] [1394] [1395] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4520--4520 []\T1/pcr/m/n/9 chisq.test(x, p = p) # maybe doubtful , but is ok![] [1396] [1397] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4695--4695 [] \T1/pcr/m/n/9 plot(pp, sort(pchisq(rr <- rchisq(n, df = df, ncp = L), df = df, ncp = L)),[] [1398] [1399] Underfull \hbox (badness 3989) in paragraph at lines 4789--4796 []\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 = [1400] [1401] [1402] [1403] [1404] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5178--5178 []\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 5180--5180 []\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))[] [1405] [1406] [1407] [1408] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5402--5402 []\T1/pcr/m/n/9 ## using sparse contrasts: % useful, once model.matrix() works with these :[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5420--5420 []\T1/pcr/m/n/10 convolve(x, y, conj = TRUE, type = c("circular", "open", "fil ter")) [1409] [1410] [1411] Underfull \hbox (badness 1436) in paragraph at lines 5630--5635 []\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 5630--5635 \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 5630--5635 \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 , [1412] [1413] Underfull \vbox (badness 10000) has occurred while \output is active [1414] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5833--5833 [] \T1/pcr/m/n/10 exact = NULL, conf.level = 0.95, continuity = FALSE, ...)[] [1415] [1416] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6000--6000 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center = TRUE, [1417] [1418] [1419] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6185--6185 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter = NULL) [1420] [1421] Overfull \hbox (84.78088pt too wide) in paragraph at lines 6293--6293 []\T1/pcr/m/n/10 reformulate(termlabels, response = NULL, intercept = TRUE, en v = parent.frame())[] [1422] [1423] [1424] [1425] Underfull \hbox (badness 5954) in paragraph at lines 6556--6558 []\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn , see [1426] Underfull \hbox (badness 2503) in paragraph at lines 6638--6641 []\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 6642--6644 []\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 6645--6650 \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, [1427] Underfull \hbox (badness 7238) in paragraph at lines 6681--6684 [][][]\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 6693--6693 []\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 6716--6716 []\T1/pcr/m/n/9 plot(dend2$lower[[3]], nodePar = list(col = 4), horiz = TRUE, type = "tr")[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6731--6731 []\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):[] [1428] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6746--6746 []\T1/pcr/m/n/9 plot(d3, nodePar= nP, edgePar = list(col = "gray", lwd = 2), h oriz = TRUE)[] [1429] [1430] [1431] Underfull \vbox (badness 10000) has occurred while \output is active [1432] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7014--7014 [] \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker n = TRUE))))[] [1433] [1434] Underfull \vbox (badness 10000) has occurred while \output is active [1435] [1436] [1437] [1438] Underfull \hbox (badness 10000) in paragraph at lines 7414--7418 []\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 [1439] Underfull \hbox (badness 6493) in paragraph at lines 7517--7520 []\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 [1440] [1441] Underfull \hbox (badness 10000) in paragraph at lines 7654--7657 []\T1/ptm/m/n/10 The CRAN task view on dis-tri-bu-tions, [][]$\T1/pcr/m/n/10 ht tps : / / CRAN . R-[]project . org / view = [1442] [1443] [1444] [1445] [1446] [1447] Underfull \hbox (badness 10000) in paragraph at lines 8066--8071 []\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 , ..., [1448] [1449] [1450] [1451] [1452] [1453] Underfull \hbox (badness 1210) in paragraph at lines 8421--8423 []\T1/ptm/m/n/10 Components of []\T1/pcr/m/n/10 control []\T1/ptm/m/n/10 can al so be sup-plied as named ar-gu-ments to [1454] [1455] [1456] [1457] [1458] [1459] Overfull \hbox (15.18042pt too wide) in paragraph at lines 8887--8887 []\T1/pcr/m/n/9 glm.qD93 <- glm(counts ~ outcome + treatment, d.AD, family = q uasipoisson())[] [1460] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8932--8932 []\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 8935--8935 []\T1/pcr/m/n/9 glm(y ~ x, family = quasi(variance = "mu(1-mu)", link = "logit "), start = c(0,1))[] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9515--9515 [] \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 9516--9516 [] \T1/pcr/m/n/9 satisfaction = c("VeryD", "LittleD", "Mod erateS", "VeryS")))[] [1469] [1470] [1471] Underfull \hbox (badness 7291) in paragraph at lines 9695--9697 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Fligner-Killeen test of homogeneity of [1472] [1473] [1474] [1475] [1476] [1477] [1478] Underfull \hbox (badness 6944) in paragraph at lines 10187--10193 [][][]\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 ); [1479] [1480] [1481] Underfull \hbox (badness 3758) in paragraph at lines 10401--10404 []\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 [1482] [1483] [1484] [1485] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10645--10645 [] \T1/pcr/m/n/10 x = FALSE, y = TRUE, singular.ok = TRUE, contrasts = NULL , ...)[] Underfull \hbox (badness 4518) in paragraph at lines 10671--10676 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1486] Underfull \hbox (badness 4132) in paragraph at lines 10710--10714 []\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 10764--10770 []\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- [1487] Underfull \hbox (badness 10000) in paragraph at lines 10815--10818 []\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 [1488] [1489] [1490] Underfull \hbox (badness 2142) in paragraph at lines 11032--11035 []\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 ^^@ [1491] Underfull \hbox (badness 1708) in paragraph at lines 11113--11117 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1492] Underfull \hbox (badness 10000) in paragraph at lines 11155--11161 [][][]\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, Underfull \hbox (badness 1418) in paragraph at lines 11193--11198 []\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 (= [1493] [1494] Underfull \hbox (badness 2635) in paragraph at lines 11326--11329 \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 [1495] [1496] [1497] Underfull \hbox (badness 1694) in paragraph at lines 11509--11512 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1498] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11607--11607 []\T1/pcr/m/n/9 heatmap(Ca, Rowv = FALSE, symm = TRUE, RowSideColors = cc, Col SideColors = cc,[] [1499] Overfull \hbox (0.78088pt too wide) in paragraph at lines 11640--11640 [] \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 11653--11657 []\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 [1500] [1501] [1502] [1503] [1504] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11975--11975 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]), col = 2:4) , DEV.FUN = nD)[] [1505]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat }) has been already used, duplicate ignored \relax l.11990 \aliasA{hat}{influence.measures}{hat} Overfull \hbox (0.78088pt too wide) in paragraph at lines 12050--12050 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA LSE),[] [1506] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12062--12062 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE), ...)[] Underfull \hbox (badness 1062) in paragraph at lines 12115--12120 []\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 12132--12134 []\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 [1507] [1508] [1509] [1510] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12387--12387 [] \T1/pcr/m/n/10 type = c("l", "p", "b", "o", "c"), legend = TRUE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12388--12388 [] \T1/pcr/m/n/10 trace.label = deparse1(substitute(trace.fact or)),[] [1511] [1512] [1513] [1514] [1515] [1516] Underfull \hbox (badness 10000) in paragraph at lines 12734--12736 []\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 = Underfull \hbox (badness 4739) in paragraph at lines 12757--12759 []\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 [1517] [1518] [1519] [1520] [1521] Underfull \hbox (badness 3417) in paragraph at lines 13064--13066 []\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 13070--13074 []\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 13070--13074 \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 [1522] [1523] [1524] [1525] [1526] [1527] Underfull \hbox (badness 1496) in paragraph at lines 13493--13499 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1528] [1529] [1530] [1531] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13742--13742 []\T1/pcr/m/n/9 lag.plot(sqrt(sunspots), set.lags = c(1:4, 9:12), pch = ".", c ol = "gold")[] [1532] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13843--13843 []\T1/pcr/m/n/9 dimnames(cAS) <- list(paste("it =", format(1:10)), c("intercep t", "slope"))[] [1533] Underfull \hbox (badness 4518) in paragraph at lines 13891--13896 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1534] [1535] [1536] Underfull \hbox (badness 10000) in paragraph at lines 14092--14096 []\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 , [1537] [1538] [1539] [1540] [1541] Underfull \hbox (badness 1163) in paragraph at lines 14431--14439 \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 , [1542] [1543] Underfull \hbox (badness 4518) in paragraph at lines 14551--14556 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1544] [1545] Overfull \hbox (12.78088pt too wide) in paragraph at lines 14739--14739 []\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 14740--14740 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1546] [1547] [1548] [1549] [1550] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15083--15083 []\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 15084--15084 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] [1551] [1552] Overfull \hbox (18.78088pt too wide) in paragraph at lines 15177--15177 []\T1/pcr/m/n/10 lowess(x, y = NULL, f = 2/3, iter = 3, delta = 0.01 * diff(ra nge(x))) [1553] [1554] [1555] [1556] [1557] [1558] Underfull \hbox (badness 2726) in paragraph at lines 15586--15589 []\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 , [1559] Overfull \hbox (4.38043pt too wide) in paragraph at lines 15680--15680 []\T1/pcr/m/n/9 stopifnot(all.equal(pfm, pf2)) ## was off (rel.diff. 0.0766) i n R <= 3.5.0[] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] Overfull \hbox (31.3804pt too wide) in paragraph at lines 16309--16309 []\T1/pcr/m/n/9 a <- model.frame(cbind(ncases,ncontrols) ~ agegp + tobgp + alc gp, data = esoph) [1570] [1571] Underfull \hbox (badness 1490) in paragraph at lines 16456--16461 \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 [1572] Underfull \hbox (badness 1648) in paragraph at lines 16524--16526 []\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, [1573] Overfull \hbox (36.7804pt too wide) in paragraph at lines 16609--16609 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts.arg = list(a = "contr.sum" , b = contr.poly))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 16610--16610 []\T1/pcr/m/n/9 m.orth <- model.matrix(~a+b, dd, contrasts.arg = list(a = "con tr.helmert"))[] [1574] [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] Overfull \hbox (9.78043pt too wide) in paragraph at lines 17167--17167 []\T1/pcr/m/n/9 stopifnot(all(na.omit(1:3) == 1:3)) # does not affect objects with no NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s[] [1583] [1584] [1585] Overfull \hbox (25.98041pt too wide) in paragraph at lines 17399--17399 []\T1/pcr/m/n/9 persp(x, size, dnb <- outer(x, size, function(x,s) dnbinom(x, s, prob = 0.4)),[] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] Underfull \vbox (badness 10000) has occurred while \output is active [1596] Overfull \hbox (42.18039pt too wide) in paragraph at lines 18121--18121 []\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:[] Underfull \vbox (badness 10000) has occurred while \output is active [1597] Overfull \hbox (74.58035pt too wide) in paragraph at lines 18139--18139 []\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 18140--18140 []\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 18144--18144 []\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 18145--18145 []\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 18148--18148 [] \T1/pcr/m/n/9 (grepl("^aarch64.*linux", R.version$platform) && grepl ("^NixOS", osVersion)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 18180--18180 [] \T1/pcr/m/n/9 start = list(a = rep(b[2], 21), b = rep(b[3], 21 ), th = b[1]))[] [1598] [1599] [1600] Overfull \hbox (9.78043pt too wide) in paragraph at lines 18356--18356 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi ty), DNase.2)[] [1601] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18403--18403 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18450--18450 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1602] [1603] [1604] [1605] Overfull \hbox (102.78088pt too wide) in paragraph at lines 18663--18663 [] \T1/pcr/m/n/10 eps = .Machine$double.eps ^ (1/if(central) 3 els e 2), central = FALSE)[] [1606] [1607] [1608] [1609] [1610] Underfull \hbox (badness 1248) in paragraph at lines 18978--18981 []\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 18991--18995 []\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 18999--19003 \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 [1611] Underfull \hbox (badness 2042) in paragraph at lines 19057--19059 []\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 [1612] Overfull \hbox (15.18042pt too wide) in paragraph at lines 19163--19163 [] \T1/pcr/m/n/9 lower = rep(2, 25), upper = rep(4, 25)) # par[24] is *no t* at boundary[] [1613] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19206--19206 [] \T1/pcr/m/n/9 main = "initial solution of traveling salesman problem", axes = FALSE)[] Overfull \hbox (123.1803pt too wide) in paragraph at lines 19224--19224 []\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 19227--19227 []\T1/pcr/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 19247--19247 []\T1/pcr/m/n/10 optimize(f, interval, ..., lower = min(interval), upper = max (interval), [1614] Overfull \hbox (36.78088pt too wide) in paragraph at lines 19250--19250 []\T1/pcr/m/n/10 optimise(f, interval, ..., lower = min(interval), upper = max (interval),[] Underfull \hbox (badness 2564) in paragraph at lines 19285--19296 []\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 19285--19296 \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 [1615] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19348--19348 []\T1/pcr/m/n/9 f <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 1)), 10), 10)[] [1616] [1617] [1618] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19575--19575 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 1, lty = 1:6,[] [1619] [1620] Underfull \hbox (badness 1337) in paragraph at lines 19686--19689 []\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 [1621] [1622] [1623] [1624] [1625] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20005--20005 [] \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 1.5),[] [1626] [1627] Overfull \hbox (24.78088pt too wide) in paragraph at lines 20093--20093 [] \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 (12.78088pt too wide) in paragraph at lines 20095--20095 [] \T1/pcr/m/n/10 panel.smooth(x, y, iter=iter.smooth, ...) else points,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 20097--20097 [] \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact ive(),[] [1628] Underfull \hbox (badness 10000) in paragraph at lines 20157--20163 \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 20157--20163 \T1/pcr/m/n/10 col = cook.col, text.col = cook.col, bty = "n", x.intersp Underfull \hbox (badness 10000) in paragraph at lines 20165--20171 []\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 20176--20179 []\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 <- [1629] [1630] [1631] [1632] [1633] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20485--20485 [] \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3, ...)[] Underfull \hbox (badness 1194) in paragraph at lines 20495--20498 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1634] Underfull \hbox (badness 1107) in paragraph at lines 20553--20555 []\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 [1635] Overfull \hbox (20.58041pt too wide) in paragraph at lines 20608--20608 []\T1/pcr/m/n/9 plot(sfun.2);plot(sfun.2, xval = tt, add = TRUE, col = "orange ") # all colors[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 20615--20615 []\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)[] [1636] [1637] Overfull \hbox (20.58041pt too wide) in paragraph at lines 20709--20709 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma r..., oma...)")[] [1638] [1639] Overfull \hbox (4.38043pt too wide) in paragraph at lines 20838--20838 [] \T1/pcr/m/n/9 ppois(10*(15:25), lambda = 100, lower.tail = FALSE) # no cancellation[] [1640] Underfull \hbox (badness 7740) in paragraph at lines 20901--20903 []\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 Overfull \hbox (6.78088pt too wide) in paragraph at lines 20949--20949 []\T1/pcr/m/n/10 poly(x, ..., degree = 1, coefs = NULL, raw = FALSE, simple = FALSE) [1641] Underfull \hbox (badness 10000) in paragraph at lines 21005--21007 []\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 [1642] Overfull \hbox (4.38043pt too wide) in paragraph at lines 21042--21042 [] \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 21047--21047 []\T1/pcr/m/n/9 ## poly(, df) --- used to fail till July 14 (vive la F rance!), 2017:[] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] Overfull \hbox (58.38037pt too wide) in paragraph at lines 21902--21902 [] \T1/pcr/m/n/9 all.equal(pz3$sdev, pZ$sdev, tolerance = 1e-15)) # e xactly equal typically[] [1656] Underfull \hbox (badness 6859) in paragraph at lines 21969--21976 [][][]\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 21980--21986 []\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 , [1657] [1658] [1659] [1660] [1661] Overfull \hbox (54.78088pt too wide) in paragraph at lines 22268--22268 [] \T1/pcr/m/n/10 rankdeficient = c("warnif", "simple", "non-estim", "N A", "NAwarn"),[] Underfull \hbox (badness 10000) in paragraph at lines 22294--22297 []\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 22294--22297 \T1/ptm/m/n/10 case of a rank de-fi-cient model, i.e., when []\T1/pcr/m/n/10 ob ject$rank < [1662] Underfull \hbox (badness 5832) in paragraph at lines 22299--22304 \T1/ptm/m/n/10 cases, i.e., vec-tors not in the same pre-dic-tor sub-space as t he Underfull \hbox (badness 8151) in paragraph at lines 22299--22304 \T1/ptm/m/n/10 orig-i-nal data (with tol-er-ance []\T1/pcr/m/n/10 tol[]\T1/ptm/ m/n/10 ). In that case, the non- Underfull \hbox (badness 1184) in paragraph at lines 22299--22304 \T1/ptm/m/n/10 estimable in-dices are also re-turned as at-tribute []\T1/pcr/m/ n/10 "non-estim" []\T1/ptm/m/n/10 (see [1663] [1664] [1665] [1666] [1667] [1668] [1669] Overfull \hbox (48.78088pt too wide) in paragraph at lines 22767--22767 [] \T1/pcr/m/n/10 subset = rep_len(TRUE, nrow(as.matrix(x))), fix_sign = TRUE, ...)[] [1670] [1671] [1672] [1673] Overfull \hbox (0.78088pt too wide) in paragraph at lines 23051--23051 [] \T1/pcr/m/n/10 has.Pvalue = nc >= 4L && length(cn <- colnames(x )) &&[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 23052--23052 [] \T1/pcr/m/n/10 substr(cn[nc], 1L, 3L) %in% c("Pr(" , "p-v"),[] [1674] [1675] [1676] [1677] [1678] Underfull \hbox (badness 1337) in paragraph at lines 23378--23384 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1679] [1680] [1681] [1682] [1683] Overfull \hbox (15.18042pt too wide) in paragraph at lines 23690--23690 []\T1/pcr/m/n/9 with(d, qqplot(Female, Male, pch = 19, xlim = c(-31, 31), ylim = c(-31, 31),[] [1684] [1685] [1686] [1687] Underfull \hbox (badness 10000) in paragraph at lines 24002--24004 []\T1/ptm/m/n/10 Wicklin, R. (2017) Sam-ple quan-tiles: A com-par-i-son of 9 de f-i-ni-tions; Underfull \hbox (badness 10000) in paragraph at lines 24002--24004 \T1/ptm/m/n/10 SAS Blog. [][]$\T1/pcr/m/n/10 https : / / blogs . sas . com / co ntent / iml / 2017 / 05 / 24 / [1688] Underfull \hbox (badness 10000) in paragraph at lines 24009--24010 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ [1689] Overfull \hbox (48.78088pt too wide) in paragraph at lines 24120--24120 [] \T1/pcr/m/n/10 method = c("non.compact", "row.compact", "col.compact" , "compact"),[] [1690] Underfull \hbox (badness 1028) in paragraph at lines 24178--24181 []\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 [1691] [1692] Underfull \hbox (badness 10000) in paragraph at lines 24293--24296 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by [1693] Underfull \hbox (badness 7099) in paragraph at lines 24348--24350 []\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 = [1694] Underfull \hbox (badness 7099) in paragraph at lines 24412--24414 []\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 24447--24447 []\T1/pcr/m/n/9 bymedianR <- with(InsectSprays, reorder(spray, count, median, decreasing=TRUE))[] [1695] [1696] Overfull \hbox (9.78043pt too wide) in paragraph at lines 24523--24523 []\T1/pcr/m/n/9 plot(reorder(dd, 10:1, agglo.FUN = mean), main = "reorder(dd, 10:1, mean)")[] [1697] [1698] Overfull \hbox (0.78088pt too wide) in paragraph at lines 24640--24640 []\T1/pcr/m/n/10 # varying = ___, # list / matrix / vector (use with care)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 24641--24641 []\T1/pcr/m/n/10 # v.names = ___, # vector of variable names in long format[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 24642--24642 []\T1/pcr/m/n/10 # timevar, times, # name / values of constructed time variable[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 24643--24643 []\T1/pcr/m/n/10 # idvar, ids) # name / values of constructed id v ariable[] [1699] [1700] Underfull \hbox (badness 10000) in paragraph at lines 24803--24808 [][][]\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 24803--24808 [][][]\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 24814--24814 []\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 24815--24815 []\T1/pcr/m/n/9 reshape(Indometh, direction = "wide", idvar = "Subject", timev ar = "time")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 24834--24834 []\T1/pcr/m/n/9 reshape(df, timevar = "visit", idvar = "id", direction = "wide ", v.names = "x")[] [1701] [1702] Overfull \hbox (60.78088pt too wide) in paragraph at lines 24938--24938 [] \T1/pcr/m/n/10 na.action = c("+Big_alternate", "-Big_alternate", "na. omit", "fail"),[] Underfull \hbox (badness 1033) in paragraph at lines 24981--24987 \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 [1703] Underfull \hbox (badness 10000) in paragraph at lines 25002--25005 []\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] = [1704] Overfull \hbox (9.78043pt too wide) in paragraph at lines 25084--25084 []\T1/pcr/m/n/9 plot(myNHT, type = "b", ylim = c(48, 60), main = "Running Medi ans Example")[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 25113--25113 []\T1/pcr/m/n/9 ## An example with initial NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s - used to fail badly (notably for "Turlach"):[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 25125--25125 []\T1/pcr/m/n/9 matplot(y = cbind(x15, rT15), type = "b", ylim = c(1,9), pch=1 :5, xlab = NA,[] [1705] [1706] [1707] [1708] [1709] [1710] Underfull \vbox (badness 10000) has occurred while \output is active [1711] [1712] Underfull \hbox (badness 6268) in paragraph at lines 25584--25589 [][][]\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 , [1713] [1714] [1715] Underfull \hbox (badness 1867) in paragraph at lines 25794--25796 []\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 25810--25814 []\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 25810--25814 \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 [1716] Overfull \hbox (20.58041pt too wide) in paragraph at lines 25852--25852 []\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 25859--25859 []\T1/pcr/m/n/9 stopifnot(all.equal(sigma(fm.DN1), summary(fm.DN1)$sigma, tole rance=1e-15))[] [1717] [1718] [1719] Underfull \hbox (badness 2495) in paragraph at lines 26042--26051 []\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 [][]$\T1/pcr/m/n/10 https : / / en . [1720] [1721] Underfull \hbox (badness 2197) in paragraph at lines 26184--26187 []\T1/pcr/m/n/10 psmirnov []\T1/ptm/m/n/10 gives the dis-tri-bu-tion func-tion, []\T1/pcr/m/n/10 qsmirnov []\T1/ptm/m/n/10 gives the quan-tile func-tion, and Overfull \hbox (24.78088pt too wide) in paragraph at lines 26204--26204 [] \T1/pcr/m/n/10 twiceit = FALSE, endrule = c("Tukey", "copy"), do.ends = FALSE)[] Underfull \hbox (badness 1412) in paragraph at lines 26211--26213 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui red; de-faults to [1722] Overfull \hbox (25.98041pt too wide) in paragraph at lines 26298--26298 []\T1/pcr/m/n/9 matlines(cbind(smooth(x, "3R"), smooth(x, "S"), smooth(x, "3RS S"), smooth(x)))[] [1723] Overfull \hbox (84.78088pt too wide) in paragraph at lines 26323--26323 []\T1/pcr/m/n/10 smooth.spline(x, y = NULL, w = NULL, df, spar = NULL, lambda = NULL, cv = FALSE, Overfull \hbox (66.78088pt too wide) in paragraph at lines 26326--26326 [] \T1/pcr/m/n/10 control.spar = list(), tol = 1e-6 * IQR(x), kee p.stuff = FALSE)[] [1724] [1725] [1726] Overfull \hbox (6.78088pt too wide) in paragraph at lines 26561--26561 [] \T1/pcr/m/n/10 nx <- length(x) - sum(duplicated( round((x - mean(x)) / t ol) ))[] Underfull \hbox (badness 2547) in paragraph at lines 26565--26571 []\T1/ptm/m/n/10 The de-fault []\T1/pcr/m/n/10 all.knots = FALSE []\T1/ptm/m/n/ 10 and []\T1/pcr/m/n/10 nknots = .nknots.smspl[]\T1/ptm/m/n/10 , en-tails us-in g only [1727] Overfull \hbox (4.38043pt too wide) in paragraph at lines 26612--26612 []\T1/pcr/m/n/9 plot(dist ~ speed, data = cars, main = "data(cars) & smoothi ng splines")[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 26633--26633 []\T1/pcr/m/n/9 with(cars.spl$fit, min + range * knot[-c(1:3, nk+1 +1:3)]) # = = unique(cars$speed)[] Underfull \vbox (badness 10000) has occurred while \output is active [1728] [1729] [1730] Overfull \hbox (0.78088pt too wide) in paragraph at lines 26825--26825 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na. fail, [1731] [1732] [1733] [1734] [1735] [1736] Overfull \hbox (36.78088pt too wide) in paragraph at lines 27205--27205 [] \T1/pcr/m/n/10 method = c("fmm", "periodic", "natural", "monoH.FC" , "hyman"),[] [1737] [1738] Overfull \hbox (69.18036pt too wide) in paragraph at lines 27386--27386 []\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 27392--27392 []\T1/pcr/m/n/9 plot(x, y, main = "spline(x,y, ties=list(\"ordered\", mean)) for when x has ties")[] Underfull \vbox (badness 10000) has occurred while \output is active [1739] Overfull \hbox (31.3804pt too wide) in paragraph at lines 27401--27401 []\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 27402--27402 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "hyman") (x), add = TRUE, c ol = 4, n = 1001)[] [1740] Underfull \hbox (badness 2922) in paragraph at lines 27471--27476 []\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 (9.78043pt too wide) in paragraph at lines 27508--27508 [] \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 27511--27511 [] \T1/pcr/m/n/9 {f[phi](x) == phi[1] + (phi[2]-phi[1])*~e^ {-e^{phi[3]}*~x}}))[] [1741] Overfull \hbox (20.58041pt too wide) in paragraph at lines 27520--27520 [] \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 27521--27521 [] \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 27525--27525 [] \T1/pcr/m/n/9 axis(2, at = c(1,AR2,5), labels= expression(phi[2], frac(phi [1]+phi[2],2), phi[1]),[] Underfull \hbox (badness 3240) in paragraph at lines 27579--27582 [][][]\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 [1742] Overfull \hbox (36.7804pt too wide) in paragraph at lines 27600--27600 [] \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 27603--27603 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(-.5,6), xlim = c(-1, 8),[] [1743] Overfull \hbox (4.38043pt too wide) in paragraph at lines 27686--27686 [] \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 27690--27690 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5), xlim = c(-1/4, 5),[] Overfull \hbox (58.38037pt too wide) in paragraph at lines 27700--27700 [] \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)[] [1744] Overfull \hbox (106.98032pt too wide) in paragraph at lines 27705--27705 [] \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 27741--27747 []\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 27763--27763 []\T1/pcr/m/n/9 print(getInitial(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), dat a = Indo.1),[] [1745] Overfull \hbox (25.98041pt too wide) in paragraph at lines 27779--27779 [] \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 27793--27793 []\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 27795--27795 [] \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 27798--27798 []\T1/pcr/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (123.1803pt too wide) in paragraph at lines 27800--27800 [] \T1/pcr/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1746] [1747] Overfull \hbox (30.78088pt too wide) in paragraph at lines 27912--27912 []\T1/pcr/m/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input) - exp(-exp(lK a)*input)) [1748] Underfull \hbox (badness 2922) in paragraph at lines 27974--27979 []\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 [1749] Overfull \hbox (69.18036pt too wide) in paragraph at lines 28012--28012 [] \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "A", phi[2] == "B", phi[3] == "xm id", phi[4] == "scal")))[] Underfull \hbox (badness 2922) in paragraph at lines 28061--28066 []\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 [1750] Overfull \hbox (4.38043pt too wide) in paragraph at lines 28092--28092 []\T1/pcr/m/n/9 lines(x, do.call(SSgompertz, c(list(x=x), coef(fm1))), col = " red", lwd=2)[] Underfull \hbox (badness 2922) in paragraph at lines 28126--28131 []\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 [1751] Overfull \hbox (25.98041pt too wide) in paragraph at lines 28151--28151 []\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 28155--28155 []\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 28175--28175 [] \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "Asym", phi[2] == "xmid", phi[3] == "scal")))[] [1752] Overfull \hbox (20.58041pt too wide) in paragraph at lines 28185--28185 [] \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 28220--28225 []\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 28242--28242 []\T1/pcr/m/n/9 print(getInitial(rate ~ SSmicmen(conc, Vm, K), data = PurTrt), digits = 3)[] [1753] Overfull \hbox (15.18042pt too wide) in paragraph at lines 28260--28260 [] \T1/pcr/m/n/9 ann = FALSE, axes = FALSE, main = "Parameters in the SS micmen model")[] [1754] Underfull \hbox (badness 6493) in paragraph at lines 28312--28317 []\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 28340--28340 []\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 28343--28343 []\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 28346--28346 []\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 28349--28349 []\T1/pcr/m/n/9 As <- coef(fm1)[["Asym"]]; abline(v = 0, h = c(As, As - coef(f m1)[["Drop"]]), lty = 3)[] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] Underfull \hbox (badness 3396) in paragraph at lines 29233--29235 []\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 [1769] [1770] [1771] Underfull \hbox (badness 2237) in paragraph at lines 29412--29414 []\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 [1772] [1773] Underfull \hbox (badness 2591) in paragraph at lines 29576--29578 []\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 [1774] Underfull \hbox (badness 2237) in paragraph at lines 29622--29625 []\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 [1775] Overfull \hbox (48.78088pt too wide) in paragraph at lines 29695--29695 []\T1/pcr/m/n/10 supsmu(x, y, wt =, span = "cv", periodic = FALSE, bass = 0, t race = FALSE) [1776] [1777] Underfull \hbox (badness 3407) in paragraph at lines 29804--29808 []\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) [1778] Overfull \hbox (47.58038pt too wide) in paragraph at lines 29874--29874 []\T1/pcr/m/n/9 symnum(ii, cutpoints = 2*(0:4), symbols = c(".", "-", "+", "$ "), show.max = TRUE)[] [1779] Underfull \hbox (badness 1337) in paragraph at lines 29937--29941 []\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 [1780] [1781] [1782] [1783] Overfull \hbox (9.78043pt too wide) in paragraph at lines 30202--30202 []\T1/pcr/m/n/9 persp(tt, ncp, ptn, zlim = 0:1, r = 2, phi = 20, theta = 200, main = t.tit,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 30230--30230 [] \T1/pcr/m/n/10 use.factor.levels = TRUE, smooth = NULL, ylim = "com mon",[] [1784] Underfull \hbox (badness 1616) in paragraph at lines 30256--30259 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1785] Overfull \hbox (20.58041pt too wide) in paragraph at lines 30335--30335 []\T1/pcr/m/n/9 termplot(model, partial.resid = TRUE, smooth = panel.smooth, s pan.smth = 1/4)[] [1786] Overfull \hbox (0.78088pt too wide) in paragraph at lines 30413--30413 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = TRUE,[] [1787] [1788] Underfull \hbox (badness 2205) in paragraph at lines 30508--30513 []\T1/ptm/m/n/10 If a []\T1/pcr/m/n/10 specials []\T1/ptm/m/n/10 ar-gu-ment was given to [][][]\T1/pcr/m/n/10 terms.formula[][][] []\T1/ptm/m/n/10 there is a [1789] [1790] Overfull \hbox (12.78088pt too wide) in paragraph at lines 30649--30649 []\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 30655--30659 []\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 Overfull \hbox (36.7804pt too wide) in paragraph at lines 30692--30692 []\T1/pcr/m/n/9 # Matrix of character (could also have logical, raw, complex . .) {also warning}:[] [1791] Overfull \hbox (36.7804pt too wide) in paragraph at lines 30705--30705 [] \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 30716--30716 []\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 30718--30718 []\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 30748--30748 [] \T1/pcr/m/n/10 class = if(nseries > 1) c("mts", "ts", "matrix", "array") else "ts",[] [1792] [1793] Underfull \hbox (badness 1655) in paragraph at lines 30826--30829 []\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 , [1794] [1795] [1796] [1797] [1798] Overfull \hbox (12.78088pt too wide) in paragraph at lines 31190--31190 []\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 31191--31191 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE)[] [1799] [1800] [1801] [1802] [1803] Overfull \hbox (30.78088pt too wide) in paragraph at lines 31491--31491 [] \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 31492--31492 [] \T1/pcr/m/n/10 tol = .Machine$double.eps^0.25, maxiter = 1000, trace = 0)[] [1804] [1805] Overfull \hbox (31.3804pt too wide) in paragraph at lines 31621--31621 []\T1/pcr/m/n/9 ##--- uniroot() with new interval extension + checking feature s: --------------[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 31630--31630 []\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 [1806] [1807] [1808] Underfull \hbox (badness 1337) in paragraph at lines 31847--31851 []\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 [1809] [1810] [1811] [1812] [1813] [1814] [1815] [1816] Underfull \hbox (badness 1337) in paragraph at lines 32376--32380 []\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 [1817] [1818] [1819] Overfull \hbox (117.7803pt too wide) in paragraph at lines 32584--32584 []\T1/pcr/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 32586--32586 []\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)[] [1820] [1821] [1822] Overfull \hbox (138.78088pt too wide) in paragraph at lines 32745--32745 [] \T1/pcr/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1823] Overfull \hbox (0.78088pt too wide) in paragraph at lines 32830--32830 []\T1/pcr/m/n/10 xtabs(formula = ~., data = parent.frame(), subset, sparse = F ALSE, [1824] [1825] Overfull \hbox (47.58038pt too wide) in paragraph at lines 32963--32963 []\T1/pcr/m/n/9 ## The Female:Rejected combination has NA \TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 Freq\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 (and NA prints \TS1/pcr/m/n/9 '\T1 /pcr/m/n/9 invisibly\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 as "")[] [1826]) (./stats4-pkg.tex Chapter 11. [1827] [1828] [1829] Overfull \hbox (15.18042pt too wide) in paragraph at lines 224--224 [] \T1/pcr/m/n/9 -sum(stats::dpois(y, lambda = exp(lymax)/(1+x/exp(lxhalf)) , log = TRUE))[] Underfull \vbox (badness 10000) has occurred while \output is active [1830] Overfull \hbox (9.78043pt too wide) in paragraph at lines 278--278 []\T1/pcr/m/n/9 ## Boundary case: This works, but fails if limits are set clos er to 0 and 1[] [1831] [1832] [1833] [1834]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1835] [1836] [1837]) (./tcltk-pkg.tex [1838] Chapter 12. [1839] [1840] [1841] [1842] [1843] Overfull \hbox (36.7804pt too wide) in paragraph at lines 360--360 []\T1/pcr/m/n/9 ls(envir = .TkRoot$env, all.names = TRUE) # .Tcl.args put a ca llback ref in here[] [1844] [1845] Underfull \vbox (badness 10000) has occurred while \output is active [1846] Underfull \hbox (badness 1292) in paragraph at lines 671--678 []\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 Underfull \vbox (badness 1603) has occurred while \output is active [1847] [1848] [1849] [1850] [1851] Underfull \vbox (badness 10000) has occurred while \output is active [1852] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1084--1084 []\T1/pcr/m/n/9 eval.txt <- function() eval(str2lang(tclvalue(tkget(txt.w, "0. 0", "end"))))[] [1853] [1854] [1855] [1856] [1857] Underfull \hbox (badness 1189) in paragraph at lines 1412--1415 [][][]\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 [1858]) (./tools-pkg.tex Chapter 13. [1859] 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.[] [1860] 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 [1861] 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)[] [1862] Underfull \hbox (badness 5147) in paragraph at lines 288--301 []\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 288--301 \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 288--301 \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 , [1863] Overfull \hbox (42.78088pt too wide) in paragraph at lines 373--373 []\T1/pcr/m/n/10 buildVignette(file, dir = ".", weave = TRUE, latex = TRUE, ta ngle = TRUE, Underfull \hbox (badness 2460) in paragraph at lines 392--394 []\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 [1864] [1865] Underfull \hbox (badness 1142) in paragraph at lines 464--468 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1866] [1867] [1868] [1869] [1870] [1871] [1872] Overfull \hbox (0.78088pt too wide) in paragraph at lines 921--921 []\T1/pcr/m/n/10 resaveRdaFiles(paths, compress = c("auto", "gzip", "bzip2", " xz"),[] [1873] Overfull \hbox (31.3804pt too wide) in paragraph at lines 976--976 []\T1/pcr/m/n/9 bad <- is.na(res$ASCII) | res$ASCII | (res$size > 1e4 & res$co mpress == "none")[] [1874] [1875] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1145--1145 [] \T1/pcr/m/n/10 outputs = FALSE, sources = FALS E, ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1146--1146 []\T1/pcr/m/n/10 check_packages_in_dir_details(dir, logs = NULL, drop_ok = TRU E, ...)[] [1876] Underfull \hbox (badness 1014) in paragraph at lines 1188--1190 []\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 1194--1196 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1877] Underfull \hbox (badness 10000) in paragraph at lines 1231--1234 []\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 1231--1234 \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 1239--1242 []\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 [1878] [1879] Underfull \hbox (badness 10000) in paragraph at lines 1386--1389 []\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 [1880] [1881] Underfull \hbox (badness 4647) in paragraph at lines 1558--1563 []\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 1558--1563 \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 1558--1563 \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 [1882] Underfull \hbox (badness 2762) in paragraph at lines 1607--1610 []\T1/ptm/m/n/10 Internal func-tions []\T1/pcr/m/n/10 CRAN_aliases_db[]\T1/ptm/ m/n/10 , []\T1/pcr/m/n/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CR AN_current_db []\T1/ptm/m/n/10 and [1883] [1884] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1719--1719 [] \T1/pcr/m/n/10 utils::installed.packages(lib.loc, fields = "En hances"))[] Underfull \hbox (badness 7981) in paragraph at lines 1726--1734 []\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 1726--1734 []\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", Underfull \hbox (badness 1558) in paragraph at lines 1726--1734 \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, [1885] [1886] [1887]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1938 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1939 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1888] [1889] [1890] [1891] Underfull \hbox (badness 1142) in paragraph at lines 2208--2214 []\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 [1892] Underfull \hbox (badness 2359) in paragraph at lines 2272--2279 []\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 2272--2279 \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 2272--2279 \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 [1893] Underfull \hbox (badness 1342) in paragraph at lines 2324--2330 \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 2349--2356 []\T1/pcr/m/n/10 matchConcordance []\T1/ptm/m/n/10 con-verts from out-put lo-ca -tions to source lo-ca-tions. 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[1895] [1896] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2538--2538 []\T1/pcr/m/n/10 package_dependencies(packages = NULL, db = NULL, which = "str ong", Underfull \hbox (badness 7981) in paragraph at lines 2553--2561 []\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 2553--2561 []\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", Underfull \hbox (badness 1558) in paragraph at lines 2553--2561 \T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . 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Rd"),[] [1902] Underfull \hbox (badness 2486) in paragraph at lines 2951--2959 []\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 [1903] [1904] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3163--3163 []\T1/pcr/m/n/10 checkDocFiles (package, dir, lib.loc = NULL, chkInternal = FALSE) [1905] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3167--3167 []\T1/pcr/m/n/10 checkRdContents (package, dir, lib.loc = NULL, chkInternal = FALSE)[] [1906] [1907] [1908] Underfull \hbox (badness 1072) in paragraph at lines 3359--3361 []\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 [1909] [1910] [1911] [1912] [1913] Overfull \hbox (72.78088pt too wide) in paragraph at lines 3707--3707 [] \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macro s", "system.Rd"))[] Underfull \hbox (badness 5417) in paragraph at lines 3745--3755 []\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 , [1914] [1915] [1916] Underfull \hbox (badness 4108) in paragraph at lines 3955--3962 []\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 [1917] [1918] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4055--4055 [] \T1/pcr/m/n/10 types = c("examples", "tests", "vignett es"),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4058--4058 []\T1/pcr/m/n/10 testInstalledBasic(scope = c("basic", "devel", "both", "inter net"))[] Underfull \hbox (badness 10000) in paragraph at lines 4075--4077 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1919] Underfull \hbox (badness 2932) in paragraph at lines 4092--4098 []\T1/pcr/m/n/10 testInstalledBasic []\T1/ptm/m/n/10 runs the ba-sic tests, if in-stalled. This should be run with [1920] Underfull \hbox (badness 7832) in paragraph at lines 4214--4217 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/pcr/m/n/10 texi2dvi []\T1/ptm/m/n/10 5 .0 and later; []\T1/pcr/m/n/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op-ti on [1921] [1922] [1923] [1924] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4449--4449 [] \T1/pcr/m/n/10 "mac.binary", "win.binary"), verbose.level = as.integer(dry run),[] [1925] [1926] Overfull \hbox (96.78088pt too wide) in paragraph at lines 4611--4611 []\T1/pcr/m/n/10 update_pkg_po(pkgdir, pkg = NULL, version = NULL, mergeOpts = "", copyright, bugs) Underfull \hbox (badness 3118) in paragraph at lines 4622--4626 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/pcr/m/n/10 m sgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 10000) in paragraph at lines 4626--4629 []\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 [1927] Underfull \hbox (badness 6859) in paragraph at lines 4642--4647 []\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 4650--4656 []\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 4650--4656 \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 [1928] [1929] [1930] Underfull \hbox (badness 10000) in paragraph at lines 4876--4878 []\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 [1931] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4905--4905 [] \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F ALSE,[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 4906--4906 [] \T1/pcr/m/n/10 latestOnly = TRUE, addFiles = FALSE, rds_compr ess = "xz",[] Underfull \hbox (badness 3240) in paragraph at lines 4919--4922 []\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 4923--4933 []\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 , Underfull \hbox (badness 1127) in paragraph at lines 4961--4967 []\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 4961--4967 \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 ', [1932] Underfull \hbox (badness 1571) in paragraph at lines 4989--4993 []\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 5015--5020 \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 [1933] [1934] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5157--5157 []\T1/pcr/m/n/9 xgettext(tmpPkg, asCall=TRUE )[[1]] # default; shows \TS1/pcr /m/n/9 ' \T1/pcr/m/n/9 sqrt(as.complex(x)) \TS1/pcr/m/n/9 '[] [1935]) (./utils-pkg.tex [1936] 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 ', [1937] [1938] [1939] [1940] Overfull \hbox (4.38043pt too wide) in paragraph at lines 261--261 []\T1/pcr/m/n/9 find("cor", numeric = TRUE) # numbers with these names[] [1941] [1942] Underfull \hbox (badness 10000) in paragraph at lines 381--386 \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 387--389 []\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 [1943] Overfull \hbox (9.78043pt too wide) in paragraph at lines 453--453 []\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 455--455 []\T1/pcr/m/n/9 .arrangeWindowsDefaults <- list(c("R", "all"), pattern = c("", "Firefox"))[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 472--472 [] \T1/pcr/m/n/10 prompts = getOption("askYesNo", gettext(c("Yes", "No ", "Cancel"))),[] [1944] [1945] [1946] Overfull \hbox (0.78088pt too wide) in paragraph at lines 686--686 []\T1/pcr/m/n/10 aspell_package_Rd_files(dir, drop = c("\\author", "\\referenc es"), Overfull \hbox (6.78088pt too wide) in paragraph at lines 692--692 []\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 693--693 [] \T1/pcr/m/n/10 program = NULL, dictionaries = charact er())[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 694--694 []\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 695--695 [] \T1/pcr/m/n/10 program = NULL, dictionaries = charact er())[] [1947] Underfull \hbox (badness 10000) in paragraph at lines 729--735 []\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 729--735 []\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- [1948] [1949] [1950] [1951] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1053--1053 []\T1/pcr/m/n/10 bibentry(bibtype, textVersion = NULL, header = NULL, footer = NULL, [1952] Underfull \hbox (badness 7649) in paragraph at lines 1127--1133 [][][]\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 1127--1133 \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 1127--1133 \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 1817) in paragraph at lines 1127--1133 \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 1136--1138 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1953] [1954] Underfull \hbox (badness 10000) in paragraph at lines 1255--1258 []\T1/ptm/m/n/10 The DOI ([][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Digital _ Object _ [1955] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1338--1338 [] \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi nkley [aut]"),[] Underfull \vbox (badness 10000) has occurred while \output is active [1956] [1957] [1958] [1959] [1960] [1961] Underfull \hbox (badness 1859) in paragraph at lines 1747--1756 []\T1/ptm/m/n/10 For ex-am-ple, sup-pose that on a data set which you know to b e quite large the com- Underfull \hbox (badness 2042) in paragraph at lines 1747--1756 \T1/ptm/m/n/10 mand []\T1/pcr/m/n/10 data.frame(x, y, z, monday, tuesday) []\T1 /ptm/m/n/10 never re-turns. Do not re-port that [1962] [1963] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1852--1852 [] \T1/pcr/m/n/9 data = infert, family = b inomial())))[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 1887--1887 []\T1/pcr/m/n/10 changedFiles(before, after, path = before$path, timestamp = b efore$timestamp,[] [1964] [1965] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2033--2033 []\T1/pcr/m/n/9 snapshot <- fileSnapshot(dir, timestamp = tempfile("timestamp" ), md5sum=TRUE)[] [1966] Underfull \hbox (badness 2277) in paragraph at lines 2102--2107 []\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 [1967] Overfull \hbox (36.7804pt too wide) in paragraph at lines 2134--2134 []\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 2136--2136 []\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 2144--2144 []\T1/pcr/m/n/9 ## How many printable characters are there? (Around 280,000 in Unicode 13.)[] [1968] [1969] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2292--2292 []\T1/pcr/m/n/10 chooseBioCmirror(graphics = getOption("menu.graphics"), ind = NULL, [1970] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2344--2344 []\T1/pcr/m/n/10 chooseCRANmirror(graphics = getOption("menu.graphics"), ind = NULL, [1971] Underfull \hbox (badness 1117) in paragraph at lines 2459--2466 []\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 2459--2466 \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 [1972] [1973] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2542--2542 []\T1/pcr/m/n/10 citeNatbib(keys, bib, textual = FALSE, before = NULL, after = NULL,[] [1974] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2662--2662 [] \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi nkley [aut]"),[] [1975] Overfull \hbox (24.78088pt too wide) in paragraph at lines 2702--2702 []\T1/pcr/m/n/10 citEntry(entry, textVersion = NULL, header = NULL, footer = N ULL, ...) Underfull \hbox (badness 1082) in paragraph at lines 2731--2735 [][][]\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; [1976]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cli pboard}) has been already used, duplicate ignored \relax l.2736 ... the Clipboard in MS Windows}{clipboard} Underfull \hbox (badness 1163) in paragraph at lines 2767--2769 []\T1/ptm/m/n/10 The Win-dows clip-board of-fers data in a num-ber of for-mats: see e.g. [][]$\T1/pcr/m/n/10 https : / / docs . Overfull \vbox (1.12102pt too high) has occurred while \output is active [1977] [1978] Underfull \hbox (badness 10000) in paragraph at lines 2860--2862 []\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 [1979] [1980] [1981] Underfull \hbox (badness 10000) in paragraph at lines 3078--3080 []\T1/ptm/m/n/10 character string, in-di-cat-ing which type of pack-ages: see [1982] [1983] [1984] [1985] Underfull \hbox (badness 1762) in paragraph at lines 3371--3374 []\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 = [1986] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3463--3463 []\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 3464--3464 []\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 '[] [1987] Underfull \hbox (badness 2452) in paragraph at lines 3538--3541 []\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 [1988] [1989] [1990] [1991] [1992] [1993] Overfull \hbox (74.58035pt too wide) in paragraph at lines 3967--3967 [] \T1/pcr/m/n/9 DLL.version(file.path(R.home(), "library/stats/libs", .Platf orm$r_arch, "stats.dll"))[] [1994] Underfull \hbox (badness 4779) in paragraph at lines 4046--4051 []\T1/ptm/m/n/10 Support for method []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [1995] Underfull \hbox (badness 1072) in paragraph at lines 4109--4113 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/pcr/m/n/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [1996] Underfull \hbox (badness 7238) in paragraph at lines 4165--4170 []\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 and []\T1/ pcr/m/n/10 "curl" []\T1/ptm/m/n/10 meth-ods, prox-ies can be set \T1/ptm/m/it/1 0 via \T1/ptm/m/n/10 the en-vi-ron- Underfull \hbox (badness 1337) in paragraph at lines 4165--4170 \T1/ptm/m/n/10 ment vari-ables []\T1/pcr/m/n/10 http_proxy []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 ftp_proxy[]\T1/ptm/m/n/10 . See [][]$\T1/pcr/m/n/10 https : / / curl . se / libcurl / c / Underfull \hbox (badness 1184) in paragraph at lines 4180--4196 \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- [1997] [1998] Underfull \hbox (badness 4660) in paragraph at lines 4306--4309 \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 4330--4332 []\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 [1999] [2000] [2001] Underfull \hbox (badness 1565) in paragraph at lines 4517--4521 []\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 [2002] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4600--4600 [] \T1/pcr/m/n/10 character.only = FALSE, give.lines = FALSE, local = F ALSE,[] [2003] Underfull \hbox (badness 1910) in paragraph at lines 4634--4641 \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 4634--4641 \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 4634--4641 []\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 4634--4641 \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 4641--4648 []\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) [2004] [2005] [2006] Underfull \hbox (badness 5939) in paragraph at lines 4887--4889 []\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 [2007] [2008] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5030--5030 []\T1/pcr/m/n/9 # Set a breakpoint in both copies of that function, assuming o ne is in the[] [2009] [2010]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.format}) has been already used, duplicate ignored \relax l.5101 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.5101 ...mat Unordered and Ordered Lists}{format} [2011] [2012] [2013] [2014] [2015] [2016] [2017] [2018] Underfull \hbox (badness 1622) in paragraph at lines 5624--5628 []\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 [2019] [2020] [2021] [2022] [2023] Underfull \hbox (badness 1448) in paragraph at lines 6003--6008 []\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 [2024] [2025] Overfull \hbox (96.78088pt too wide) in paragraph at lines 6153--6153 []\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[] [2026] Overfull \hbox (66.78088pt too wide) in paragraph at lines 6165--6165 []\T1/pcr/m/n/10 tail(x, n = 6L, keepnums = TRUE, addrownums, ...) # exported as tail.matrix()[] [2027] [2028] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6299--6299 [] \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 6300--6300 [] \T1/pcr/m/n/9 ## --- because [i,j]-indexing of data frames *also* drops "other" attributes ..[] [2029] [2030] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6510--6510 [] \T1/pcr/m/n/9 ## -> nicely formatted pdf -- including math formula -- for h elp(dgamma):[] [2031] Underfull \hbox (badness 10000) in paragraph at lines 6594--6596 []\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 [2032] Underfull \hbox (badness 1502) in paragraph at lines 6643--6648 []\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 6643--6648 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2033] [2034] [2035] Underfull \hbox (badness 10000) in paragraph at lines 6816--6825 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, Underfull \hbox (badness 10000) in paragraph at lines 6816--6825 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 R.home("docs")/html/packages.html\T1/ptm/m/n/10 ', which can be re-made by [2036] Underfull \hbox (badness 2150) in paragraph at lines 6880--6883 []\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 6896--6899 []\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 [2037] [2038] Underfull \hbox (badness 3118) in paragraph at lines 7019--7021 []\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 [2039] [2040] Underfull \hbox (badness 5091) in paragraph at lines 7194--7196 []\T1/ptm/m/n/10 download method, see [][][]\T1/pcr/m/n/10 download.file[][][][ ]\T1/ptm/m/n/10 . Un-used if a non-[]\T1/pcr/m/n/10 NULL Underfull \hbox (badness 10000) in paragraph at lines 7224--7231 []\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 7224--7231 \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 7224--7231 \T1/pcr/m/n/10 "LinkingTo") []\T1/ptm/m/n/10 for added de-pen-den-cies: this in -stalls all the pack-ages [2041] Underfull \hbox (badness 1270) in paragraph at lines 7239--7249 \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 4441) in paragraph at lines 7282--7285 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be passed to Underfull \hbox (badness 2837) in paragraph at lines 7282--7285 []\T1/pcr/m/n/10 R 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 1424) in paragraph at lines 7290--7293 []\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 [2042] Underfull \hbox (badness 2376) in paragraph at lines 7361--7368 []\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 7361--7368 \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 7361--7368 \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 7369--7372 []\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 [2043] Underfull \hbox (badness 1314) in paragraph at lines 7449--7456 []\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 [2044] Underfull \hbox (badness 10000) in paragraph at lines 7532--7537 [][][]\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 7555--7555 [] \T1/pcr/m/n/9 configure.args = c(RNetCDF = "--with-netcdf-include=/usr/inc lude/udunits2"))[] [2045] Underfull \hbox (badness 5133) in paragraph at lines 7591--7595 []\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 7605--7608 []\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 [2046] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7652--7652 []\T1/pcr/m/n/9 plic <- installed.packages(.Library, priority = "high", fields = "License")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7657--7657 []\T1/pcr/m/n/9 ## Keep packages that come with R (priority="high") and all ot hers separate![] [2047] [2048] Underfull \hbox (badness 4132) in paragraph at lines 7783--7785 []\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 [2049] [2050] [2051] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7950--7950 []\T1/pcr/m/n/9 ls.str(mode = "list") #- what are the structured objects I h ave defined?[] [2052] [2053] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8093--8093 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F ALSE) [2054] Underfull \hbox (badness 10000) in paragraph at lines 8133--8135 []\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 [2055] Underfull \hbox (badness 10000) in paragraph at lines 8238--8240 []\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 8243--8245 []\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 [2056] [2057] [2058] [2059] Underfull \hbox (badness 1859) in paragraph at lines 8471--8474 []\T1/ptm/m/n/10 logical spec-i-fy-ing that the news should be opened in the br owser (by Underfull \hbox (badness 1052) in paragraph at lines 8490--8500 \T1/ptm/m/n/10 ac-cord-ing to ver-sion us-ing \T1/pcr/m/n/10 section \T1/ptm/m/ n/10 el-e-ments with names start-ing with a suit-able pre-fix [2060] Underfull \hbox (badness 1655) in paragraph at lines 8565--8568 []\T1/ptm/m/n/10 A data frame in-her-it-ing from class []\T1/pcr/m/n/10 "news_d b"[]\T1/ptm/m/n/10 , with [][][]\T1/pcr/m/n/10 attributes[][][] "package" []\T1 /ptm/m/n/10 (and Overfull \hbox (25.98041pt too wide) in paragraph at lines 8576--8576 []\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 8584--8584 []\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):[] [2061] Overfull \hbox (47.58038pt too wide) in paragraph at lines 8592--8592 []\T1/pcr/m/n/9 ## Which categories have been in use? % R-core maybe should st andardize a bit more[] [2062] Underfull \hbox (badness 1917) in paragraph at lines 8679--8681 []\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 , [2063] Underfull \vbox (badness 10000) has occurred while \output is active [2064] [2065] [2066] Overfull \hbox (66.78088pt too wide) in paragraph at lines 8953--8953 [] \T1/pcr/m/n/10 date.fields = c("Date", "Packaged", "Date/Publica tion", "Built"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 8954--8954 [] \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 8955--8955 [] \T1/pcr/m/n/10 desc = packageDescription(pkg, lib.loc=lib.loc, f ields=date.fields))[] [2067] Underfull \hbox (badness 10000) in paragraph at lines 8983--8985 []\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 8997--8999 []\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 9005--9010 []\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, [2068] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9049--9049 [] \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 9050--9050 [] \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[] [2069] [2070] Underfull \hbox (badness 10000) in paragraph at lines 9178--9183 []\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 9185--9188 []\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 [2071] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9300--9300 [] \T1/pcr/m/n/10 include = c("given", "family", "email", "role", "comme nt"),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9301--9301 [] \T1/pcr/m/n/10 braces = list(given = "", family = "", email = c("<", ">"),[] [2072] [2073] [2074] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9481--9481 [] \T1/pcr/m/n/9 "S original, "),[] [2075] [2076] Underfull \hbox (badness 1789) in paragraph at lines 9651--9653 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] [2087] [2088] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10489--10489 [] \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", " no.loss"),[] [2089] [2090] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10650--10650 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header = TRUE, tr anspose = TRUE)[] [2091] [2092] [2093] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10831--10831 []\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[] [2094] Overfull \hbox (42.78088pt too wide) in paragraph at lines 10917--10917 [] \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", "no.loss"),[] Overfull \hbox (72.78088pt too wide) in paragraph at lines 10918--10918 [] \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 10920--10920 [] \T1/pcr/m/n/10 skip = 0, check.names = TRUE, fill = !blank.lines. skip,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 10925--10925 [] \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, ski pNul = FALSE)[] [2095] Underfull \hbox (badness 2027) in paragraph at lines 10997--11000 []\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 [2096] Underfull \hbox (badness 2435) in paragraph at lines 11020--11024 []\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 11020--11024 []\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 [2097] [2098] [2099] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11281--11281 []\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 11282--11282 [] \T1/pcr/m/n/10 maxdepth = 1, view = c("default", "32-bit", "64- bit"))[] Underfull \hbox (badness 10000) in paragraph at lines 11289--11294 []\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 11289--11294 \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 11289--11294 []\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 [2100] [2101] [2102] [2103] Overfull \hbox (18.78088pt too wide) in paragraph at lines 11521--11521 [] \T1/pcr/m/n/10 ipar <- list(mean = c(0, 1), vcov = c bind(c(1, 1), c (1, 0))) [2104] [2105] [2106] [2107] Underfull \hbox (badness 10000) in paragraph at lines 11787--11791 \T1/pcr/m/n/10 en . wikipedia . org / w / index . php ? title = Roman _ numeral s & oldid = 78252134$[][]\T1/ptm/m/n/10 . Overfull \hbox (20.58041pt too wide) in paragraph at lines 11805--11805 []\T1/pcr/m/n/9 as.roman(c(NA, 1:3, "", strrep("I", 1:6))) # + NA with a warni ng for "IIIIII"[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11810--11810 []\T1/pcr/m/n/9 ## simple consistency checks -- arithmetic when result is in {1,2,..,3899} :[] [2108] [2109] Overfull \hbox (18.78088pt too wide) in paragraph at lines 11946--11946 []\T1/pcr/m/n/10 4. | \-base:::tryCatchOne(expr, names, parentenv, handler s[[1L]])[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 11947--11947 []\T1/pcr/m/n/10 5. | \-base:::doTryCatch(return(expr), name, parentenv, handler)[] [2110] [2111] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12082--12082 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold = 0) [2112] [2113] Underfull \hbox (badness 1917) in paragraph at lines 12214--12217 []\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 12214--12217 \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 12237--12237 []\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 '[] [2114] [2115] Overfull \hbox (54.78088pt too wide) in paragraph at lines 12329--12329 [] \T1/pcr/m/n/10 restrict = c("functions", "descriptions", "news", "Rfunctions",[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 12330--12330 [] \T1/pcr/m/n/10 "Rmanuals", "READMEs", "views", "vig nettes"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 12332--12332 [] \T1/pcr/m/n/10 sortby = c("score", "date:late", "date:early", "s ubject",[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 12333--12333 [] \T1/pcr/m/n/10 "subject:descending", "size", "size:de scending"),[] Underfull \hbox (badness 6725) in paragraph at lines 12356--12364 \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 12356--12364 \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 [2116] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12401--12401 []\T1/pcr/m/n/9 fullquery <- RSiteSearch("lattice", restrict = c("vignettes"," Rfunctions"))[] [2117] Underfull \hbox (badness 1377) in paragraph at lines 12457--12460 []\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 Underfull \hbox (badness 3646) in paragraph at lines 12492--12494 [][][]$\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 / [2118] Overfull \hbox (30.78088pt too wide) in paragraph at lines 12530--12530 [] \T1/pcr/m/n/10 split = FALSE, quiet = FALSE, drop.evalFALSE = F ALSE, ...)[] [2119] [2120] Underfull \hbox (badness 10000) in paragraph at lines 12712--12716 []\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 [2121] Underfull \hbox (badness 10000) in paragraph at lines 12745--12751 []\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 12760--12766 []\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 [2122] [2123] Overfull \hbox (6.78088pt too wide) in paragraph at lines 12917--12917 [] \T1/pcr/m/n/10 units = "in", type = "quartz", bg = "transpa rent")[] Underfull \hbox (badness 1009) in paragraph at lines 12935--12947 []\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 [2124] Underfull \hbox (badness 2600) in paragraph at lines 12975--12977 []\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 Underfull \hbox (badness 1043) in paragraph at lines 13018--13023 []\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 [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 1888) in paragraph at lines 13320--13323 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the plat-form \T1/phv/m/n/10 R \T1/ptm/m/n/10 was built un-der. Where Underfull \hbox (badness 10000) in paragraph at lines 13337--13340 []\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 13340--13343 []\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in g [2130] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13386--13386 []\T1/pcr/m/n/9 toLatex(sI, locale = FALSE) # shortest; possibly desirable at end of report[] [2131] Underfull \hbox (badness 2158) in paragraph at lines 13445--13448 []\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 Overfull \hbox (0.78088pt too wide) in paragraph at lines 13493--13493 []\T1/pcr/m/n/10 setWindowTitle(suffix, title = paste(getIdentification(), suf fix)) [2132] [2133] [2134] Underfull \hbox (badness 2302) in paragraph at lines 13650--13652 []\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 [2135] Underfull \hbox (badness 3333) in paragraph at lines 13758--13760 []\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- [2136] [2137] [2138] Overfull \hbox (42.78088pt too wide) in paragraph at lines 13925--13925 [] \T1/pcr/m/n/10 format(x, trim = TRUE, drop0trailing = TRUE, ...))[] Underfull \hbox (badness 2012) in paragraph at lines 13949--13954 []\T1/ptm/m/n/10 logical; if []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 (de-fault), [][][]\T1/pcr/m/n/10 deparse[][][](control = ) []\T1/ptm/m/n/10 will not ha ve Underfull \hbox (badness 5970) in paragraph at lines 13958--13961 []\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 13958--13961 [][][]\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 13969--13978 []\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; [2139] Underfull \hbox (badness 1442) in paragraph at lines 13985--13989 []\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 14031--14031 []\T1/pcr/m/n/9 str(.Machine, digits.d = 20) # extra digits for identification of binary numbers[] [2140] Overfull \hbox (15.18042pt too wide) in paragraph at lines 14058--14058 []\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 14065--14065 []\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 14067--14067 []\T1/pcr/m/n/9 invisible(lapply(60:66, function(N) str( ch , nchar.max = N))) # "1 is 1" here[] [2141] [2142] [2143] Underfull \hbox (badness 10000) in paragraph at lines 14233--14235 []\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 [2144] Underfull \hbox (badness 10000) in paragraph at lines 14343--14346 []\T1/ptm/m/n/10 further ar-gu-ments passed to the driver's setup func-tion. Se e Underfull \hbox (badness 1389) in paragraph at lines 14343--14346 [][][]\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- [2145] Underfull \hbox (badness 6300) in paragraph at lines 14391--14398 []\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 14391--14398 \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 14391--14398 \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$"[]\T1/ptm/m/n/10 ) and [2146] [2147] Underfull \hbox (badness 2020) in paragraph at lines 14555--14563 \T1/ptm/m/n/10 si-bly use-ful val-ues in-clude `[]\T1/pcr/m/n/10 -h[]\T1/ptm/m/ n/10 ' (fol-low sym-bolic links, also `[]\T1/pcr/m/n/10 -L[]\T1/ptm/m/n/10 ' on some plat-forms), Underfull \hbox (badness 1194) in paragraph at lines 14555--14563 \T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 --acls[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 -- exclude-backups[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --exclude-vcs[]\T1/ptm/m/n /10 ' (and sim-i-lar) and on Win-dows [2148] Underfull \hbox (badness 1622) in paragraph at lines 14564--14571 []\T1/ptm/m/n/10 A con-ve-nient and ro-bust way to set op-tions for GNU []\T1/p cr/m/n/10 tar []\T1/ptm/m/n/10 is via en-vi-ron-ment vari-able [2149] Underfull \hbox (badness 5022) in paragraph at lines 14705--14709 []\T1/ptm/m/n/10 When ar-gu-ment []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 is set t o the com-mand []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 14712--14715 [][][]$\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 14712--14715 \T1/pcr/m/n/10 opengroup . org / onlinepubs / 9699919799 / utilities / pax . ht ml # tag _ 20 _ 92 _ [2150] [2151] [2152] [2153] [2154] [2155] [2156] [2157] [2158] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15330--15330 [] \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc, ...),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15336--15336 [] \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc, ...),[] [2159] Underfull \hbox (badness 4467) in paragraph at lines 15357--15359 []\T1/ptm/m/n/10 Download method, see [][][]\T1/pcr/m/n/10 download.file[][][][ ]\T1/ptm/m/n/10 . Un-used if a non-[]\T1/pcr/m/n/10 NULL Underfull \hbox (badness 4660) in paragraph at lines 15372--15376 \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 15386--15390 []\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 15392--15397 []\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 15392--15397 \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 15392--15397 []\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 15398--15400 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See [2160] Underfull \hbox (badness 10000) in paragraph at lines 15428--15433 []\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 15428--15433 \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 Underfull \hbox (badness 10000) in paragraph at lines 15449--15454 []\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 15457--15460 [][][]\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 , [2161] Overfull \hbox (15.18042pt too wide) in paragraph at lines 15534--15534 []\T1/pcr/m/n/9 ## Not run: url.show("https://www.stats.ox.ac.uk/pub/datasets/ csb/ch3a.txt") [2162] [2163] [2164] Underfull \hbox (badness 2293) in paragraph at lines 15741--15744 [][][]\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[][][](, [2165] Overfull \hbox (42.18039pt too wide) in paragraph at lines 15757--15757 []\T1/pcr/m/n/9 ## Note that \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 package = *\TS1/pcr /m/n/9 ' \T1/pcr/m/n/9 is much faster in the case of many installed packages:[] [2166] Overfull \hbox (4.38043pt too wide) in paragraph at lines 15824--15824 [] \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 15846--15846 [] \T1/pcr/m/n/9 nls(weight ~ SSlogis(Time, Asym, xmid, scal), data = DD)))[] [2167] [2168] Underfull \hbox (badness 1297) in paragraph at lines 15978--15980 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the ac-tion when that menu i s se-lected, or [2169] Underfull \hbox (badness 4036) in paragraph at lines 16025--16027 []\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. [2170] [2171] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16145--16145 []\T1/pcr/m/n/10 write.table(x, file = "", append = FALSE, quote = TRUE, sep = " ", [2172] Underfull \hbox (badness 1715) in paragraph at lines 16197--16200 []\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 16242--16244 []\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 = [2173] [2174] [2175]) [2176] [2177] [2178] (./KernSmooth-pkg.tex Chapter 15. [2179] Overfull \hbox (24.78088pt too wide) in paragraph at lines 123--123 []\T1/pcr/m/n/10 bkde2D(x, bandwidth, gridsize = c(51L, 51L), range.x, truncat e = TRUE) [2180] [2181] [2182] [2183] [2184] Overfull \hbox (18.78088pt too wide) in paragraph at lines 518--518 []\T1/pcr/m/n/10 dpill(x, y, blockmax = 5, divisor = 20, trim = 0.01, proptrun = 0.05, [2185] [2186] [2187] [2188]) (./MASS-pkg.tex Chapter 16. [2189] [2190] [2191] [2192] [2193] [2194] [2195] [2196] [2197] [2198] [2199] Overfull \hbox (20.58041pt too wide) in paragraph at lines 772--772 []\T1/pcr/m/n/9 dreg <- cbind(sin = sin(2*pi*beav2$hours/24), cos = cos(2*pi*b eav2$hours/24))[] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] [2221] [2222] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2418--2418 []\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 2422--2422 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", "F"),[] [2223] [2224] [2225] [2226] Underfull \hbox (badness 6559) in paragraph at lines 2701--2704 []\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 [2227] [2228] [2229] Underfull \hbox (badness 10000) in paragraph at lines 2871--2876 []\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 2871--2876 []\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 , [2230] [2231] Underfull \hbox (badness 4686) in paragraph at lines 3043--3045 []\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 [2232] [2233] [2234] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3243--3243 [] \T1/pcr/m/n/10 eps.max = .Machine$double.eps^0.25, verbose = FAL SE, ...)[] [2235] [2236] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3373--3373 []\T1/pcr/m/n/9 survreg(Surv(time, cens) ~ factor(pair) + treat, gehan, dist = "exponential")[] [2237] [2238] [2239] [2240] [2241] [2242] [2243] [2244] [2245] [2246] [2247] Underfull \hbox (badness 1845) in paragraph at lines 4173--4175 []\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 [2248] [2249] [2250] [2251] [2252] [2253] [2254] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4667--4667 [] \T1/pcr/m/n/10 col = 5, xlab = deparse(substitute(data)), bty = "n", ...)[] [2255] [2256] [2257] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4889--4889 []\T1/pcr/m/n/10 lm.ridge(formula, data, subset, na.action, lambda = 0, model = FALSE, [2258] [2259] [2260] [2261] [2262] [2263] [2264] [2265] [2266] [2267] [2268] [2269] [2270] [2271] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5944--5944 []\T1/pcr/m/n/10 mvrnorm(n = 1, mu, Sigma, tol = 1e-6, empirical = FALSE, EISP ACK = FALSE) [2272] Overfull \hbox (48.78088pt too wide) in paragraph at lines 6005--6005 []\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") [2273] [2274]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.npk}) has been already used, duplicate ignored \relax l.6165 ...sical N, P, K Factorial Experiment}{npk} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.npk.1}) has been already used, duplica te ignored \relax l.6165 ...sical N, P, K Factorial Experiment}{npk} [2275] [2276] [2277] [2278] [2279] [2280] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6585--6585 [] \T1/pcr/m/n/9 start = list(fixed=c(L75=c(48.7, -0.03), lsc=0.24)), verb ose = TRUE)))[] [2281] Overfull \hbox (18.78088pt too wide) in paragraph at lines 6673--6673 [] \T1/pcr/m/n/10 dimen, abbrev = FALSE, ..., cex=0.7, type = c("std", "tr ellis"))[] [2282] [2283] [2284] [2285] [2286] [2287] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7112--7112 []\T1/pcr/m/n/9 nlmod <- nls(y ~ Const + A * exp(B * x), start=list(Const=100 , A=10, B=1))[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 7129--7129 [] \T1/pcr/m/n/10 method = c("logistic", "probit", "loglog", "cloglog", "c auchit"))[] [2288] Underfull \hbox (badness 3138) in paragraph at lines 7207--7213 []\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 ) = [2289] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7277--7277 []\T1/pcr/m/n/9 house.plr <- polr(Sat ~ Infl + Type + Cont, weights = Freq, da ta = housing)[] [2290] [2291] Underfull \hbox (badness 1389) in paragraph at lines 7386--7389 []\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, [2292] [2293] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7516--7516 []\T1/pcr/m/n/9 fm <- lqs(stack.loss ~ ., data = stackloss, method = "S", nsam p = "exact")[] [2294] Overfull \hbox (24.78088pt too wide) in paragraph at lines 7581--7581 [] \T1/pcr/m/n/10 method = c("plug-in", "predictive", "debiased", "looC V"), ...)[] [2295] [2296] [2297] [2298] [2299] [2300] Underfull \hbox (badness 4686) in paragraph at lines 8019--8021 []\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 [2301] [2302] Overfull \hbox (6.78088pt too wide) in paragraph at lines 8138--8138 [] \T1/pcr/m/n/10 maxit = 20, acc = 1e-4, test.vec = "resid", lqs.control = NULL)[] Underfull \hbox (badness 1590) in paragraph at lines 8162--8166 []\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 [2303] [2304] [2305] [2306] [2307] [2308] [2309] [2310] [2311] [2312] [2313] [2314] [2315] [2316] [2317] [2318] [2319] [2320] [2321] [2322] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9542--9542 []\T1/pcr/m/n/10 summary(object, method = c("XtX", "XtWX"), correlation = FALS E, ...)[] [2323] Underfull \hbox (badness 2035) in paragraph at lines 9654--9656 []\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 9669--9672 []\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), [2324] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9751--9751 []\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 9753--9753 []\T1/pcr/m/n/10 theta.ml(y, mu, n, weights, limit = 10, eps = .Machine$double .eps^0.25,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9756--9756 []\T1/pcr/m/n/10 theta.mm(y, mu, dfr, weights, limit = 10, eps = .Machine$doub le.eps^0.25)[] [2325] [2326] [2327] [2328] [2329] [2330] [2331] [2332] [2333] [2334] [2335] [2336] [2337]) (./Matrix-pkg.tex [2338] 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 [2339] 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 [2340] 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 [2341] Underfull \hbox (badness 10000) in paragraph at lines 256--259 []\T1/ptm/m/n/10 these three meth-ods are sim-ply us-ing Underfull \hbox (badness 10000) in paragraph at lines 262--264 []\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 [2342] [2343] Overfull \hbox (15.18042pt too wide) in paragraph at lines 445--445 [] \T1/pcr/m/n/9 band(sm5, -1, 1)# "dsyMatrix": symmetric band preserves sym metry property[] [2344] Underfull \hbox (badness 5119) in paragraph at lines 488--492 []\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 492--497 [][][]\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 522--522 []\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 524--524 []\T1/pcr/m/n/9 s2 <- bandSparse(13, k = c(0:2, 6), diag = c(diags, diags[2]) , symm=TRUE)[] [2345] Overfull \hbox (15.18042pt too wide) in paragraph at lines 533--533 []\T1/pcr/m/n/9 lLis <- lapply(list(rpois(20, 2), rpois(20,1), rpois(20,3))[c( 1:3,2:3,3:2)],[] [2346] Overfull \hbox (52.98038pt too wide) in paragraph at lines 647--647 []\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:[] Overfull \hbox (96.18033pt too wide) in paragraph at lines 648--648 []\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 649--649 []\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}"}.[] [2347] Overfull \hbox (31.3804pt too wide) in paragraph at lines 662--662 [] \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 663--663 [] \T1/pcr/m/n/9 i = as.vector(matrix(0L:(M-1L), nrow=k)[, rep(seq_len( N), each=k)]),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 668--668 []\T1/pcr/m/n/9 l12 <- replicate(12, matrix(rpois(16, lambda = 6.4), 4,4), sim plify=FALSE)[] [2348] Underfull \hbox (badness 1874) in paragraph at lines 737--740 []\T1/ptm/m/n/10 The orig-i-nal LA-PACK source code, in-clud-ing doc-u-men-ta-t ion; [][]$\T1/pcr/m/n/10 https : / / netlib . org / [2349] [2350] Underfull \hbox (badness 1107) in paragraph at lines 859--864 \T1/ptm/m/n/10 sity'' of []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/ 10 y[]\T1/ptm/m/n/10 , see e.g., the \T1/phv/m/n/10 R \T1/ptm/m/n/10 code in [] \T1/pcr/m/n/10 selectMethod(cbind2, Underfull \hbox (badness 10000) in paragraph at lines 890--895 []\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: [2351] Overfull \hbox (72.78088pt too wide) in paragraph at lines 954--954 []\T1/pcr/m/n/10 ## solve(a, b, system = c("A","LDLt","LD","DLt","L","Lt","D ","P","Pt"), ...)[] [2352] Underfull \hbox (badness 3612) in paragraph at lines 1041--1044 []\T1/pcr/m/n/10 signature(from = "CHMfactor", to = "pMatrix") []\T1/ptm/m/n/10 re-turns the per-mu-ta-tion [2353]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cho l}) has been already used, duplicate ignored \relax l.1141 ...- 'Matrix' S4 Generic and Methods}{chol} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.chol.1}) has been already used, duplic ate ignored \relax l.1141 ...- 'Matrix' S4 Generic and Methods}{chol} [2354] [2355] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1288--1288 []\T1/pcr/m/n/9 ## --> see Cholesky() and its examples, for the pivot structur e & factorization[] [2356] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1383--1383 []\T1/pcr/m/n/10 Cholesky(A, perm = TRUE, LDL = !super, super = FALSE, Imult = 0, ...) Underfull \hbox (badness 2277) in paragraph at lines 1411--1414 []\T1/ptm/m/n/10 This is a generic func-tion with spe-cial meth-ods for dif-fer -ent types of ma-tri-ces. Use [2357] [2358] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1485--1485 []\T1/pcr/m/n/9 ## hence, the identical() check *should* work, but fails on so me GOTOblas:[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1499--1499 []\T1/pcr/m/n/9 dq <- function(ch) paste(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 "\TS1/p cr/m/n/9 '\T1/pcr/m/n/9 ,ch,\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 "\TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 , sep="") ## dQuote() gives bad plots[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 1507--1507 []\T1/pcr/m/n/9 (opts <- expand.grid(perm = c(TRUE,FALSE), LDL = c(TRUE,FALSE) , super = c(FALSE,TRUE)))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1516--1516 []\T1/pcr/m/n/9 str(re <- lapply(rr, expand), max.level=2) ## each has a \TS1/ pcr/m/n/9 '\T1/pcr/m/n/9 P\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and a \TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 L\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 matrix[] [2359] Underfull \hbox (badness 10000) in paragraph at lines 1552--1559 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 new("Cholesky", ...) []\T1/ptm/m/n/10 or Underfull \hbox (badness 4673) in paragraph at lines 1552--1559 []\T1/pcr/m/n/10 new("BunchKaufman", ...)[]\T1/ptm/m/n/10 , etc, or rather by c alls of the form [][][]\T1/pcr/m/n/10 chol[][][](pm) []\T1/ptm/m/n/10 or Underfull \hbox (badness 1783) in paragraph at lines 1587--1591 []\T1/ptm/m/n/10 Both these fac-tor-iza-tions can \T1/ptm/m/it/10 di-rectly \T1 /ptm/m/n/10 be treated as (tri-an-gu-lar) ma-tri-ces, as they ex-tend Underfull \hbox (badness 1221) in paragraph at lines 1603--1609 \T1/ptm/m/n/10 ply an $\OML/cmm/m/it/10 n \OMS/cmsy/m/n/10 ^^B \OML/cmm/m/it/10 n$ \T1/ptm/m/n/10 nu-meric [][][]\T1/pcr/m/n/10 matrix[][][][]\T1/ptm/m/n/10 . Hence, for com-pat-i-bil-ity, the []\T1/pcr/m/n/10 "Cholesky" []\T1/ptm/m/n/10 and [2360]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.col Sums}) has been already used, duplicate ignored \relax l.1644 ... Row and Column Sums and Means}{colSums} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.colSums.1}) has been already used, dup licate ignored \relax l.1644 ... Row and Column Sums and Means}{colSums} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.colMeans}) has been already used, dupl icate ignored \relax l.1645 \aliasA{colMeans}{colSums}{colMeans} pdfTeX warning (ext4): destination w ith the same identifier (name{Rfn.rowMeans}) has been already used, duplicate i gnored \relax l.1658 \aliasA{rowMeans}{colSums}{rowMeans} pdfTeX warning (ext4): destination w ith the same identifier (name{Rfn.rowSums}) has been already used, duplicate ig nored \relax l.1665 \aliasA{rowSums}{colSums}{rowSums} [2361] Underfull \hbox (badness 2922) in paragraph at lines 1715--1719 []\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 1715--1719 \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 1726--1729 [][][]\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 [2362] [2363] Underfull \hbox (badness 3547) in paragraph at lines 1880--1883 []\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 [2364] [2365] [2366] [2367] [2368] Underfull \hbox (badness 7379) in paragraph at lines 2383--2385 []\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 [2369] [2370] [2371] Underfull \hbox (badness 4846) in paragraph at lines 2608--2612 []\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 2613--2617 []\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 Underfull \hbox (badness 10000) in paragraph at lines 2620--2623 []\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 dgCMatrix[][][] []\T1/ptm/m/n/10 or the su-per-classes [][][]\T1/pcr/m/n/10 dsparseMatrix[][][] []\T1/ptm/m/n/10 a nd [][][]\T1/pcr/m/n/10 TsparseMatrix[][][][]\T1/ptm/m/n/10 ; [2372] Underfull \hbox (badness 5231) in paragraph at lines 2657--2662 []\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 2668--2668 []\T1/pcr/m/n/10 .sparseDiagonal(n, x = NULL, uplo = "U", shape = "t", unitri = TRUE, kind, cols)[] [2373] Underfull \hbox (badness 10000) in paragraph at lines 2724--2727 []\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 2724--2727 []\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- [2374] Underfull \hbox (badness 3646) in paragraph at lines 2821--2824 []\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 2856--2860 []\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 2865--2871 []\T1/pcr/m/n/10 signature(e1 = "ddiMatrix", e2="denseMatrix")[]\T1/ptm/m/n/10 : the re-sult is from class [2375] Underfull \hbox (badness 10000) in paragraph at lines 2872--2876 []\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 2882--2886 [][][]\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 [2376] [2377] [2378] Underfull \hbox (badness 10000) in paragraph at lines 3136--3138 []\T1/pcr/m/n/10 signature(x = "dMatrix", digits = "numeric")[]\T1/ptm/m/n/10 : this group con-tains [2379] [2380] Overfull \hbox (69.18036pt too wide) in paragraph at lines 3276--3276 []\T1/pcr/m/n/9 stopifnot(all.equal(S9p0, S9p))# same as as default, but diffe rent from the random one[] [2381] Underfull \hbox (badness 2469) in paragraph at lines 3386--3389 []\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 [2382] Underfull \hbox (badness 10000) in paragraph at lines 3409--3414 []\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 3409--3414 [][][]\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 3415--3424 \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 3415--3424 \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", [2383] Underfull \hbox (badness 10000) in paragraph at lines 3541--3545 []\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 3541--3545 []\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 , [2384] Underfull \hbox (badness 1571) in paragraph at lines 3591--3594 []\T1/pcr/m/n/10 signature(x = "dsCMatrix", pivot = "logical")[]\T1/ptm/m/n/10 : Re-turns (and stores) the [2385] [2386] Underfull \hbox (badness 10000) in paragraph at lines 3739--3744 []\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 Underfull \hbox (badness 6961) in paragraph at lines 3739--3744 \T1/ptm/m/n/10 class []\T1/pcr/m/n/10 "dsparseMatrix" []\T1/ptm/m/n/10 or []\T1 /pcr/m/n/10 "RsparseMatrix"[]\T1/ptm/m/n/10 ; class []\T1/pcr/m/n/10 "compMatri x" []\T1/ptm/m/n/10 by class Underfull \hbox (badness 1400) in paragraph at lines 3751--3754 []\T1/pcr/m/n/10 signature(x = "dsRMatrix", uplo = "character")[]\T1/ptm/m/n/10 : if []\T1/pcr/m/n/10 uplo == [2387] Underfull \hbox (badness 10000) in paragraph at lines 3802--3804 []\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 3838--3841 []\T1/pcr/m/n/10 signature(x = "dspMatrix", type = "character")[]\T1/ptm/m/n/10 , or []\T1/pcr/m/n/10 x = "dsyMatrix" [2388] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3883--3883 []\T1/pcr/m/n/9 stopifnot(all(S1 == S2)) # equal "seen as matrix", but differ internally :[] [2389] [2390] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3989--3989 []\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 4043--4047 []\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 4052--4055 []\T1/pcr/m/n/10 signature(x = "dtpMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : Ma-trix mul-ti-pli-ca-tion; [2391] Underfull \hbox (badness 10000) in paragraph at lines 4055--4059 []\T1/pcr/m/n/10 signature(x = "dtpMatrix", logarithm = "logical")[]\T1/ptm/m/n /10 : the [2392] [2393] Underfull \hbox (badness 2065) in paragraph at lines 4224--4228 []\T1/pcr/m/n/10 signature(a = "dtrMatrix", b = "....")[]\T1/ptm/m/n/10 efficie ntely use a ``for-ward-solve'' or [2394] [2395] [2396] [2397] Overfull \hbox (112.38031pt too wide) in paragraph at lines 4481--4481 []\T1/pcr/m/n/9 str(jgl009 <- ## https://math.nist.gov/MatrixMarket/data/Harwe ll-Boeing/counterx/counterx.html[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 4488--4488 [] \T1/pcr/m/n/9 readHB(gzcon(url("https://www.cise.ufl.edu/research/sparse/RB /Boeing/msc00726.tar.gz"))))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4492--4492 []\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 4495--4495 []\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)[] Overfull \hbox (58.38037pt too wide) in paragraph at lines 4505--4505 []\T1/pcr/m/n/9 ## has columns (i, j, x) -> we can use via do.call() as argume nts to sparseMatrix():[] [2398] [2399] [2400] Underfull \hbox (badness 2237) in paragraph at lines 4683--4688 []\T1/ptm/m/n/10 a string ([]\T1/pcr/m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n /10 "R"[]\T1/ptm/m/n/10 , or []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 ) spec-i-fy-i ng the stor-age of the re-sult as Underfull \hbox (badness 10000) in paragraph at lines 4701--4703 []\T1/ptm/m/n/10 a string, one of []\T1/pcr/m/n/10 "trace", "sumLog", "prod", " min", "max", [2401] [2402] [2403] [2404] Underfull \hbox (badness 10000) in paragraph at lines 5033--5038 []\T1/ptm/m/n/10 Classes [][][]\T1/pcr/m/n/10 compMatrix[][][][]\T1/ptm/m/n/10 , and the non-general vir-tual classes: [][][]\T1/pcr/m/n/10 symmetricMatrix[][ ][][]\T1/ptm/m/n/10 , [2405] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5114--5114 []\T1/pcr/m/n/9 if(isTRUE(try(require(graph)))) { ## super careful .. for "che cking reasons" [2406] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5116--5116 [] \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 5120--5120 [] \T1/pcr/m/n/9 show(a2 <- sparseMatrix(i= c(1:4,4), j=c(2:4,1:2), x = TRUE, dimnames=dns))[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5127--5127 [] \T1/pcr/m/n/9 a. <- sparseMatrix(i= 4:1, j=1:4, dimnames=list(n4,n4), give C=FALSE) # no \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 x\TS1/pcr/m/n/9 '[] [2407] [2408] Underfull \hbox (badness 4120) in paragraph at lines 5266--5269 []\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 5284--5284 []\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 5304--5304 []\T1/pcr/m/n/9 ## Using (xlim,ylim) has advantage : matrix dimension and (col /row) indices:[] [2409] Overfull \hbox (36.7804pt too wide) in paragraph at lines 5310--5310 [] \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 5311--5311 [] \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 5315--5315 []\T1/pcr/m/n/9 image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd=3, bor der.col = adjustcolor("skyblue", 1/2))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5323--5323 []\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 5326--5326 [] \T1/pcr/m/n/9 ## and now look at the *.png image in a viewer you can easi ly zoom in and out[] [2410] Underfull \hbox (badness 1817) in paragraph at lines 5420--5429 []\T1/ptm/m/n/10 While ``row-indexing'' (of more than one row \T1/ptm/m/it/10 o r \T1/ptm/m/n/10 us-ing []\T1/pcr/m/n/10 drop=FALSE[]\T1/ptm/m/n/10 ) stays wit hin the Underfull \hbox (badness 10000) in paragraph at lines 5462--5464 []\T1/pcr/m/n/10 signature(x = "matrix", y = "indMatrix") []\T1/ptm/m/n/10 and other sig-na-tures (use Underfull \hbox (badness 7081) in paragraph at lines 5464--5467 []\T1/pcr/m/n/10 signature(from = "integer", to = "indMatrix")[]\T1/ptm/m/n/10 : This en-ables typ-i-cal [2411] Underfull \hbox (badness 4556) in paragraph at lines 5470--5477 []\T1/pcr/m/n/10 signature(from = "list", to = "indMatrix")[]\T1/ptm/m/n/10 : T he list must have two Underfull \hbox (badness 3302) in paragraph at lines 5488--5491 []\T1/pcr/m/n/10 signature(X = "indMatrix", Y = "indMatrix")[]\T1/ptm/m/n/10 : re-turn the kro-necker [2412] [2413] [2414] [2415] Overfull \hbox (138.78088pt too wide) in paragraph at lines 5872--5872 []\T1/pcr/m/n/10 isSymmetric(object, tol = 100 * .Machine$double.eps, tol1 = 8 * tol, checkDN = TRUE, ...)[] [2416] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5878--5878 []\T1/pcr/m/n/10 isSymmetric(object, tol = 100 * .Machine$double.eps, checkDN = TRUE, ...)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5937--5937 []\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 5941--5941 []\T1/pcr/m/n/9 showMethods("isSymmetric", includeDefs = TRUE) # includes S3 g eneric from base[] [2417] Overfull \hbox (31.3804pt too wide) in paragraph at lines 6033--6033 []\T1/pcr/m/n/9 isTriangular(as(M, "generalMatrix")) # still triangular, even if not "formally"[] [2418] Overfull \hbox (18.78088pt too wide) in paragraph at lines 6058--6058 []\T1/pcr/m/n/10 KhatriRao(X, Y = X, FUN = "*", sparseY = TRUE, make.dimnames = FALSE) [2419] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6138--6138 []\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 6139--6139 [] \T1/pcr/m/n/9 all(K2 <- KhatriRao(zm, nd) == 0), identical(dim(K2) , c(12L, 4L)))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6146--6146 [] \T1/pcr/m/n/9 identical(dimnames(KhatriRao(m, d0, make.dimnames=TRUE)), di mnames(Kmd)))[] [2420] [2421] Underfull \hbox (badness 1062) in paragraph at lines 6307--6310 []\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 [2422] Underfull \hbox (badness 6063) in paragraph at lines 6333--6336 []\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 [2423] Underfull \hbox (badness 2635) in paragraph at lines 6478--6483 []\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 6478--6483 \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 6486--6489 []\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., [2424] Underfull \hbox (badness 10000) in paragraph at lines 6553--6563 []\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 6553--6563 [][][]\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 [2425] Underfull \hbox (badness 3179) in paragraph at lines 6635--6638 []\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 [2426] Underfull \hbox (badness 10000) in paragraph at lines 6720--6723 []\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., [2427] Underfull \hbox (badness 10000) in paragraph at lines 6781--6784 []\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., [2428] Underfull \hbox (badness 1430) in paragraph at lines 6855--6861 \T1/ptm/m/n/10 should be sig-nalled when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is sin-gu-lar. When []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is sin-gu-lar, []\T1/pcr/ m/n/10 lu(x, Underfull \hbox (badness 1675) in paragraph at lines 6880--6883 []\T1/pcr/m/n/10 lu() []\T1/ptm/m/n/10 is a generic func-tion with spe-cial met h-ods for dif-fer-ent types of ma-tri-ces. Use [2429] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6952--6952 [] \T1/pcr/m/n/9 # q is a 0-based permutation o f the columns[] [2430] [2431] Underfull \hbox (badness 10000) in paragraph at lines 7092--7095 []\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 7114--7116 []\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) [2432] [2433] [2434]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.det}) has been already used, duplicate ignored \relax l.7305 \aliasA{det}{Matrix-class}{det} Underfull \hbox (badness 1337) in paragraph at lines 7393--7396 []\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 7406--7409 [2435] Underfull \hbox (badness 10000) in paragraph at lines 7415--7417 []\T1/pcr/m/n/10 signature(from = "ANY", to = "Matrix")[]\T1/ptm/m/n/10 : This re-lies on a cor-rect [2436]pdfTeX warning (ext4): destination with the same identifier (name{Rfn..Rp cent.*.Rpcent.}) has been already used, duplicate ignored \relax l.7478 ...*\%}{matrix-products}{.Rpcent.*.Rpcent.} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.crossprod}) has been already used, dup licate ignored \relax l.7575 ...A{crossprod}{matrix-products}{crossprod} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.tcrossprod}) has been already used, du plicate ignored \relax l.7676 ...tcrossprod}{matrix-products}{tcrossprod} Underfull \hbox (badness 1881) in paragraph at lines 7777--7783 \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 [2437] Underfull \hbox (badness 10000) in paragraph at lines 7850--7853 []\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 7853--7858 []\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 7853--7858 []\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 7858--7862 \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 7868--7869 []\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and other sig-na- [2438] [2439] Underfull \hbox (badness 1062) in paragraph at lines 8043--8046 []\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 [2440] Underfull \hbox (badness 6063) in paragraph at lines 8075--8078 []\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 [2441] Underfull \hbox (badness 3312) in paragraph at lines 8131--8133 []\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 <- [2442] [2443] Overfull \hbox (85.38034pt too wide) in paragraph at lines 8233--8233 [] \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 8273--8273 []\T1/pcr/m/n/9 stopifnot(all.equal(ncr, ncF))# norm type does not matter at a ll in this example[] Underfull \vbox (badness 10000) has occurred while \output is active [2444] Underfull \hbox (badness 2635) in paragraph at lines 8329--8334 []\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 8329--8334 \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 8337--8340 []\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., [2445] Underfull \hbox (badness 2521) in paragraph at lines 8406--8412 []\T1/pcr/m/n/10 signature(from = "matrix", to = "nMatrix")[]\T1/ptm/m/n/10 : N ote that these co-er-cions [2446] Underfull \hbox (badness 1867) in paragraph at lines 8517--8519 []\T1/ptm/m/n/10 fast sim- [2447]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.nor m}) has been already used, duplicate ignored \relax l.8557 \HeaderA{norm}{Matrix Norms}{norm} pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.norm.1}) has been already used, duplicate ignor ed \relax l.8557 \HeaderA{norm}{Matrix Norms}{norm} [2448] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8650--8650 []\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 8651--8651 []\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 8652--8652 []\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 8708--8718 []\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 , [2449] Underfull \hbox (badness 3179) in paragraph at lines 8779--8782 []\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 [2450] Underfull \hbox (badness 10000) in paragraph at lines 8859--8862 []\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., [2451] Underfull \hbox (badness 10000) in paragraph at lines 8923--8926 []\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., [2452] [2453] Underfull \hbox (badness 10000) in paragraph at lines 9018--9019 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "missing", dr op = Underfull \hbox (badness 10000) in paragraph at lines 9019--9020 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "missing", drop = Underfull \hbox (badness 10000) in paragraph at lines 9020--9021 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "missing", drop = Underfull \hbox (badness 10000) in paragraph at lines 9021--9022 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "missing", dro p = Underfull \hbox (badness 10000) in paragraph at lines 9022--9023 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "missing", dr op = Underfull \hbox (badness 10000) in paragraph at lines 9023--9024 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9024--9025 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9025--9026 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9026--9027 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9027--9028 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9028--9029 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9029--9030 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9030--9031 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9031--9032 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9032--9033 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9033--9034 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "missing", dr op = Underfull \hbox (badness 10000) in paragraph at lines 9034--9035 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "missing", drop = Underfull \hbox (badness 10000) in paragraph at lines 9035--9036 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "missing", drop = Underfull \hbox (badness 10000) in paragraph at lines 9036--9037 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "missing", dro p = Underfull \hbox (badness 10000) in paragraph at lines 9037--9038 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "missing", dr op = [2454] Underfull \hbox (badness 10000) in paragraph at lines 9038--9039 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9039--9040 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9040--9041 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9041--9042 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9042--9043 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9043--9044 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9044--9045 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9045--9046 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9046--9047 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9047--9048 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "index", drop = [2455] Underfull \hbox (badness 10000) in paragraph at lines 9137--9139 []\T1/pcr/m/n/10 signature(x = "matrix", y = "pMatrix") []\T1/ptm/m/n/10 and ot her sig-na-tures (use Underfull \hbox (badness 5008) in paragraph at lines 9139--9142 []\T1/pcr/m/n/10 signature(from = "integer", to = "pMatrix")[]\T1/ptm/m/n/10 : This is en-ables typ-i-cal Underfull \hbox (badness 1558) in paragraph at lines 9145--9149 []\T1/pcr/m/n/10 signature(x = "pMatrix", logarithm="logical")[]\T1/ptm/m/n/10 : Since per-mu-ta- Underfull \hbox (badness 3229) in paragraph at lines 9149--9153 \T1/ptm/m/n/10 trix; note that []\T1/pcr/m/n/10 solve(P) []\T1/ptm/m/n/10 is id en-ti-cal to []\T1/pcr/m/n/10 t(P) []\T1/ptm/m/n/10 for per-mu-ta-tion ma-tri-c es. See [2456] [2457] Overfull \hbox (36.78088pt too wide) in paragraph at lines 9228--9228 [] \T1/pcr/m/n/10 col.names, note.dropping.colnames = TRUE, uniD iag = TRUE,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9231--9231 []\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 9233--9233 [] \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln ames = TRUE,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 9237--9237 []\T1/pcr/m/n/10 printSpMatrix2(x, digits = NULL, maxp = max(100L, getOption(" max.print")),[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9238--9238 [] \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln ames = TRUE,[] Underfull \hbox (badness 3989) in paragraph at lines 9263--9273 []\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 9263--9273 \T1/ptm/m/n/10 be printed, pos-si-bly ab-bre-vi-ated. The de-fault is taken fro m [2458] [2459]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.qr}) has been already used, duplicate ignored \relax l.9364 \aliasA{qr}{qr-methods}{qr} [2460] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9436--9436 []\T1/pcr/m/n/9 stopifnot(identical(dimnames(X), dnX))# some versions changed X\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s dimnames![] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9447--9447 []\T1/pcr/m/n/9 qxrLA <- qr(m(Xr), LAPACK=TRUE) # => qr.fitted(), qr.resid() n ot supported[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 9466--9466 []\T1/pcr/m/n/9 ##----- rank-deficient ("singular") case --------------------- ---------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9474--9474 []\T1/pcr/m/n/9 (X. <- drop0(Q. %*% R.[, qI], tol=tolE))## just = X, incl. cor rect colnames[] Underfull \vbox (badness 10000) has occurred while \output is active [2461] Underfull \hbox (badness 2005) in paragraph at lines 9531--9537 []\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 9548--9551 []\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 [2462] [2463] Overfull \hbox (85.38034pt too wide) in paragraph at lines 9647--9647 []\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 9663--9663 []\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 9669--9669 []\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 9670--9670 []\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.9688 ... the Reciprocal Condition Number}{rcond} [2464] [2465] Overfull \hbox (20.58041pt too wide) in paragraph at lines 9806--9806 []\T1/pcr/m/n/9 rcond(x2 <- cbind(x1, 2:11))# practically 0, since x2 does not have full rank[] [2466] [2467] [2468] Underfull \hbox (badness 2150) in paragraph at lines 9997--10005 \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 [2469] [2470] Underfull \hbox (badness 1558) in paragraph at lines 10137--10140 []\T1/ptm/m/n/10 numeric square Ma-trix (in-her-it-ing from class []\T1/pcr/m/n /10 "Matrix"[]\T1/ptm/m/n/10 ) or tra-di-tional [2471] Overfull \hbox (52.98038pt too wide) in paragraph at lines 10199--10199 [] \T1/pcr/m/n/9 z[order(Mod(z), decreasing=TRUE)]}) , tolerance = 1e-13),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 10203--10203 []\T1/pcr/m/n/9 ## For the faint of heart, we provide Schur() also for traditi onal matrices:[] [2472]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.sol ve}) has been already used, duplicate ignored \relax l.10265 \aliasA{solve}{solve-methods}{solve} Overfull \hbox (48.78088pt too wide) in paragraph at lines 10367--10367 []\T1/pcr/m/n/10 ## solve(a, b, ...) # the two-argument version, almost always preferred to Overfull \hbox (90.78088pt too wide) in paragraph at lines 10379--10379 []\T1/pcr/m/n/10 solve(a, b, system = c("A", "LDLt", "LD", "DLt", "L", "Lt", " D", "P", "Pt"), ...)[] [2473] Underfull \hbox (badness 1616) in paragraph at lines 10414--10426 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 solve []\T1/ptm/m/n/10 meth-ods for a Underfull \hbox (badness 10000) in paragraph at lines 10431--10434 []\T1/ptm/m/n/10 (for all []\T1/pcr/m/n/10 b[]\T1/ptm/m/n/10 ) work via []\T1/p cr/m/n/10 as(a, Underfull \hbox (badness 10000) in paragraph at lines 10440--10447 []\T1/ptm/m/n/10 with ex-tra ar-gu-ment list []\T1/pcr/m/n/10 ( Underfull \hbox (badness 10000) in paragraph at lines 10453--10463 []\T1/ptm/m/n/10 with ex-tra ar-gu-ment list []\T1/pcr/m/n/10 ( Underfull \hbox (badness 3657) in paragraph at lines 10453--10463 \T1/pcr/m/n/10 sparse=FALSE, tol = .Machine$double.eps ) []\T1/ptm/m/n/10 : Che cks if []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 is sym-met-ric, [2474] Underfull \hbox (badness 6032) in paragraph at lines 10480--10484 []\T1/ptm/m/n/10 All these meth-ods first try Cholmod's Underfull \hbox (badness 10000) in paragraph at lines 10487--10489 []\T1/ptm/m/n/10 all end up call-ing LA-PACK rou-tines Underfull \hbox (badness 10000) in paragraph at lines 10510--10511 []\T1/ptm/m/n/10 works via []\T1/pcr/m/n/10 as(b, Underfull \hbox (badness 10000) in paragraph at lines 10516--10518 []\T1/ptm/m/n/10 these meth-ods typ-i-cally use Underfull \hbox (badness 10000) in paragraph at lines 10520--10521 []\T1/ptm/m/n/10 all work via []\T1/pcr/m/n/10 as(a, Underfull \hbox (badness 10000) in paragraph at lines 10528--10531 [][][]\T1/pcr/m/n/10 solve[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lu[][][ ][]\T1/ptm/m/n/10 , and class doc-u-men-ta-tions [][][]\T1/pcr/m/n/10 CHMfactor [][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 sparseLU[][][][]\T1/ptm/m/n/10 , and Overfull \hbox (4.38043pt too wide) in paragraph at lines 10547--10547 []\T1/pcr/m/n/9 image(ia0 <- solve(a)) # checker board, dense [but really, a i s singular!][] Overfull \hbox (25.98041pt too wide) in paragraph at lines 10551--10551 [] \T1/pcr/m/n/9 ## Fails on 32-bit [Fedora 19, R 3.0.2] from Matrix 1.1-0 on [FIXME ??] only[] [2475] Underfull \hbox (badness 10000) in paragraph at lines 10572--10575 []\T1/ptm/m/n/10 Construct a sparse model or ``de-sign'' ma-trix, from a for-mu la and data frame Overfull \hbox (6.78088pt too wide) in paragraph at lines 10589--10589 [] \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveCs parse)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10591--10591 [] \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveCs parse,[] Underfull \hbox (badness 1648) in paragraph at lines 10600--10602 []\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 10608--10611 []\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 10608--10611 []\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 [2476] Underfull \hbox (badness 10000) in paragraph at lines 10619--10623 []\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 10619--10623 []\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 Underfull \hbox (badness 1668) in paragraph at lines 10634--10639 [][][]\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 [2477] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10714--10714 [] \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 10715--10715 [] \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 10716--10716 [] \T1/pcr/m/n/9 is(M <- fac2sparse(f12, drop= TRUE),"CsparseMatrix"), dim(M) == c(0,12),[] [2478] Overfull \hbox (85.38034pt too wide) in paragraph at lines 10816--10816 []\T1/pcr/m/n/9 stopifnot(all.equal(pA, pLU, tolerance = 1e-12)) # (incl. perm uted row- and column-names)[] [2479] Underfull \hbox (badness 10000) in paragraph at lines 10897--10899 []\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 10904--10904 [] \T1/pcr/m/n/10 symmetric = FALSE, triangular = FALSE, index1 = TRUE,[] [2480] Underfull \hbox (badness 2261) in paragraph at lines 10942--10948 \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 [2481] Underfull \hbox (badness 10000) in paragraph at lines 11031--11034 []\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 11043--11043 []\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 11047--11047 []\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 11048--11048 []\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 11053--11053 []\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 11056--11056 []\T1/pcr/m/n/9 ## i, j and x can be in an arbitrary order, as long as they ar e consistent[] [2482] Overfull \hbox (15.18042pt too wide) in paragraph at lines 11079--11079 []\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 11080--11080 []\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 11106--11106 []\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 11108--11108 [] \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 11110--11110 [] \T1/pcr/m/n/9 XX <- sparseMatrix(j = X@ja, p = X@ia - 1L, x = X@ra, dims = X@dimension)[] Underfull \vbox (badness 10000) has occurred while \output is active [2483] Underfull \hbox (badness 6842) in paragraph at lines 11207--11210 []\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 [2484] Underfull \hbox (badness 10000) in paragraph at lines 11242--11246 [][][]\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 pdfTeX warning (ext4): destination with the same identifier (name{Rfn.qr.Q}) ha s been already used, duplicate ignored \relax l.11282 \aliasA{qr.Q}{sparseQR-class}{qr.Q} [2485] [2486] Underfull \hbox (badness 10000) in paragraph at lines 11411--11413 []\T1/pcr/m/n/10 signature(a = "sparseQR", b = "ANY")[]\T1/ptm/m/n/10 : For []\ T1/pcr/m/n/10 solve(a,b)[]\T1/ptm/m/n/10 , sim-ply uses Overfull \hbox (58.38037pt too wide) in paragraph at lines 11439--11439 [] \T1/pcr/m/n/9 qc <- qr.coef (qrm, y); qc. <- qr.coef (qrm, y.) # 2nd fai led in Matrix <= 1.1-0[] [2487] Underfull \hbox (badness 5036) in paragraph at lines 11467--11469 []\T1/ptm/m/n/10 vector of the non zero en-tries; may be miss-ing in which case a Underfull \hbox (badness 2970) in paragraph at lines 11578--11584 []\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 11578--11584 \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 , [2488] Underfull \hbox (badness 10000) in paragraph at lines 11629--11632 []\T1/pcr/m/n/10 signature(x = "sparseVector", mode = "character") []\T1/ptm/m/ n/10 co-erces sparse [2489] Underfull \hbox (badness 10000) in paragraph at lines 11669--11674 []\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 11684--11686 [][][]\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(*, [2490] [2491] Underfull \hbox (badness 2310) in paragraph at lines 11809--11815 [][][]\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, [2492] [2493] Underfull \hbox (badness 2591) in paragraph at lines 11923--11928 \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 Underfull \hbox (badness 2057) in paragraph at lines 11999--12001 []\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., [2494] [2495] Underfull \hbox (badness 6641) in paragraph at lines 12086--12089 []\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 12131--12135 []\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 12131--12135 \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 [2496] [2497] Underfull \hbox (badness 7649) in paragraph at lines 12238--12240 []\T1/ptm/m/n/10 a sparse ma-trix stored in triplet form, i.e., in-her-it-ing f rom class [2498] [2499] Underfull \hbox (badness 10000) in paragraph at lines 12356--12358 []\T1/ptm/m/n/10 typically a []\T1/pcr/m/n/10 "packedMatrix"[]\T1/ptm/m/n/10 , though [2500] Underfull \hbox (badness 1668) in paragraph at lines 12485--12488 [][][]\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 [2501] Underfull \hbox (badness 7362) in paragraph at lines 12536--12538 []\T1/ptm/m/n/10 any \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject, co-er-ca-ble to a sparse ma-trix (i.e., of sub-class of [2502] Overfull \hbox (15.18042pt too wide) in paragraph at lines 12574--12574 []\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 12575--12575 []\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)[] [2503] [2504] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12729--12729 [] \T1/pcr/m/n/9 sapply(rho, function(x) c(2* determinant(update(C1, nWC, 1/ x))$modulus))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12734--12734 [] \T1/pcr/m/n/9 sapply(rho, function(x) c(2* determinant(update(C2, nWC, 1/ x))$modulus))[] [2505] Underfull \hbox (badness 6910) in paragraph at lines 12940--12942 []\T1/ptm/m/n/10 is cur-rently a sim-ple fall-back [2506] Package hyperref Warning: Glyph not defined in PU encoding, (hyperref) removing `\Rpercent' on input line 12987. Package hyperref Warning: Glyph not defined in PU encoding, (hyperref) removing `\Rpercent' on input line 12987. [2507] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13117--13117 []\T1/pcr/m/n/9 L. <- L; L.[1:2,1] <- TRUE; L.@x[1:2] <- FALSE; L. # has "zero s" to drop0()[] [2508]) (./boot-pkg.tex Chapter 18. [2509] [2510] [2511] [2512] [2513] [2514] [2515] 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"), [2516] 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- [2517] [2518] [2519] 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 , [2520] 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 [2521] [2522] [2523] 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 [2524] [2525] [2526] [2527] 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- [2528] [2529] [2530] [2531] [2532] 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), [2533] [2534] [2535] Underfull \vbox (badness 10000) has occurred while \output is active [2536] 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),[] [2537] 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. [2538] [2539] [2540] 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 [2541] 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 , [2542] [2543] 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 [2544] [2545] [2546] [2547] [2548] 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,[] [2549] [2550] [2551] 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 , [2552] 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)) [2553] [2554] [2555] 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 [2556] [2557] [2558] [2559] [2560] [2561] [2562] 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)[] [2563] [2564] 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])[] [2565] [2566] [2567] [2568] 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 [2569] [2570] 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 [2571] [2572] [2573] [2574] [2575] [2576] [2577] [2578] [2579] 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 [2580] [2581] [2582] [2583] 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 [2584] 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])[] [2585] [2586] [2587] [2588] [2589] [2590] [2591] [2592] 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][] [2593] 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 [2594] 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 [2595] [2596] [2597] [2598] 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). [2599] [2600] 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[] [2601] [2602] [2603] 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 [2604] [2605] 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),[] [2606] [2607] [2608] [2609] [2610] [2611] [2612] [2613]) (./class-pkg.tex [2614] Chapter 19. [2615] [2616] [2617] [2618] [2619] [2620] [2621] [2622] [2623] [2624] [2625] [2626] [2627] [2628] [2629] [2630]) (./cluster-pkg.tex Chapter 20. [2631] [2632] [2633] 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]))[] [2634] [2635] Underfull \vbox (badness 10000) has occurred while \output is active [2636] [2637] 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, ...)[] [2638] [2639] 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)[] [2640] Underfull \hbox (badness 3078) in paragraph at lines 691--694 []\T1/ptm/m/n/10 Setting this to []\T1/pcr/m/n/10 FALSE []\T1/ptm/m/n/10 saves mem-ory (and hence time), but dis-ables [2641] [2642] Underfull \hbox (badness 2941) in paragraph at lines 791--794 [][][]\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 , [2643] Overfull \hbox (9.78043pt too wide) in paragraph at lines 834--834 []\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 881--883 []\T1/ptm/m/n/10 list with sil-hou-ette width in-for-ma-tion for the best sam-p le, see [2644] Overfull \hbox (24.78088pt too wide) in paragraph at lines 946--946 [] \T1/pcr/m/n/10 arrowArgs = list(col="red3", length=1/16, angle=90, code =3), ...)[] [2645] 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, [2646] [2647] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1121--1121 [] \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 1138--1138 []\T1/pcr/m/n/9 ## You can manually set it before running this : doExtras < - TRUE # or FALSE[] Underfull \vbox (badness 10000) has occurred while \output is active [2648] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1176--1176 []\T1/pcr/m/n/9 plot(gsP.Z, main = "clusGap() ==> k = 1 clust er is optimal")[] Underfull \hbox (badness 4144) in paragraph at lines 1208--1212 []\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 [2649] Overfull \hbox (60.78088pt too wide) in paragraph at lines 1284--1284 [] \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 1290--1290 [] \T1/pcr/m/n/10 round(100 * var.dec, digits = 2), "% of the poin t variability."),[] [2650] [2651] [2652] Underfull \hbox (badness 10000) in paragraph at lines 1477--1480 Underfull \hbox (badness 10000) in paragraph at lines 1494--1498 [][][]\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 1518--1518 []\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 1528--1528 [] \T1/pcr/m/n/9 clusplot(votes.diss, votes.clus, diss = TRUE, labels = 5)# i dent. only points[] [2653] Underfull \hbox (badness 5741) in paragraph at lines 1568--1571 []\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 [2654] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1637--1637 [] \T1/pcr/m/n/10 warnBin = warnType, warnAsym = warnType, warnConst = wa rnType,[] [2655] Underfull \hbox (badness 1552) in paragraph at lines 1686--1688 []\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 1699--1703 []\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 1699--1703 \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 [2656] Underfull \hbox (badness 1540) in paragraph at lines 1775--1783 \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 = [2657] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1867--1867 []\T1/pcr/m/n/9 summary(dfl2 <- daisy(flower, type = list(asymm = c(1, 3), ord ratio = 7)))[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 1886--1886 []\T1/pcr/m/n/10 diana(x, diss = inherits(x, "dist"), metric = "euclidean", st and = FALSE, [2658] [2659] [2660] [2661] [2662] Underfull \hbox (badness 10000) in paragraph at lines 2207--2210 Underfull \hbox (badness 3179) in paragraph at lines 2221--2227 [][][]\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. [2663] [2664] Underfull \hbox (badness 10000) in paragraph at lines 2379--2382 [][][]\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 , [2665] Underfull \hbox (badness 1292) in paragraph at lines 2447--2450 []\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 [2666] Underfull \hbox (badness 6675) in paragraph at lines 2456--2458 []\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 2479--2482 [][][]\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 , [2667] [2668] Overfull \hbox (48.78088pt too wide) in paragraph at lines 2608--2608 []\T1/pcr/m/n/10 medoids(x, clustering, diss = inherits(x, "dist"), USE.NAMES = FALSE, ...) [2669] Overfull \hbox (69.18036pt too wide) in paragraph at lines 2655--2655 [] \T1/pcr/m/n/9 stopifnot(length(cl.k) == nrow(votes.repub), 1 <= cl.k, cl.k <= k, table(cl.k) >= 2)[] [2670] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2760--2760 []\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 ):[] [2671] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2839--2839 [] \T1/pcr/m/n/10 variant = c("original", "o_1", "o_2", "f_3", "f_4", "f_5" , "faster"),[] [2672] [2673] [2674] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3068--3068 []\T1/pcr/m/n/9 ## no _build_ *and* no _swap_ phase: just cluster all obs. aro und (1, 16):[] [2675] [2676] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3171--3171 []\T1/pcr/m/n/9 axis(1, k.best, paste("best",k.best,sep="\n"), col = "red", co l.axis = "red")[] [2677] [2678] [2679] Overfull \hbox (78.78088pt too wide) in paragraph at lines 3367--3367 [] \T1/pcr/m/n/10 sub = paste("Agglomerative Coefficient = ",round(x $ac, digits = 2)),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3368--3368 [] \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty = TRUE, ...)[] [2680] Underfull \hbox (badness 10000) in paragraph at lines 3435--3438 []\T1/ptm/m/n/10 For the den-dro-gram, more flex-i-bil-ity than via []\T1/pcr/m /n/10 pltree() []\T1/ptm/m/n/10 is pro-vided by []\T1/pcr/m/n/10 dg <- [2681] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3485--3485 [] \T1/pcr/m/n/10 sub = paste("Divisive Coefficient = ", round(x$dc, digits = 2)),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3486--3486 [] \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty = TRUE, ...)[] [2682] [2683] [2684] Underfull \hbox (badness 10000) in paragraph at lines 3671--3674 []\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 3671--3674 \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 [2685] Underfull \hbox (badness 10000) in paragraph at lines 3734--3739 [][][]\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 , [2686] Underfull \hbox (badness 1748) in paragraph at lines 3796--3801 \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 3808--3811 [][][]\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 , [2687] [2688] [2689] Underfull \hbox (badness 10000) in paragraph at lines 3993--3996 [][][]\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 , Underfull \hbox (badness 10000) in paragraph at lines 4024--4027 [][][]\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 , [2690] Overfull \hbox (36.78088pt too wide) in paragraph at lines 4077--4077 [] \T1/pcr/m/n/10 digits = getOption("digits"), justify = "none", right = TRUE, ...)[] [2691] Underfull \hbox (badness 2035) in paragraph at lines 4088--4090 []\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 [2692] [2693] [2694] Overfull \hbox (54.78088pt too wide) in paragraph at lines 4281--4281 [] \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 4283--4283 [] \T1/pcr/m/n/10 cex.names = par("cex.axis"), do.n.k = TRUE, do.clus.stat = TRUE, ...)[] [2695] [2696] Overfull \hbox (31.3804pt too wide) in paragraph at lines 4426--4426 []\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 4435--4435 [] \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 4437--4437 [] \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 4440--4440 []\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 4442--4442 [] \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k), do.n.k=FALSE,[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 4449--4449 []\T1/pcr/m/n/9 str(xc1k <- xclara[ sample(nrow(xclara), size = 1000) ,]) # ro wnames == indices[] [2697] [2698] [2699] [2700] [2701] [2702] [2703] Underfull \hbox (badness 10000) in paragraph at lines 4823--4829 []\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 4839--4841 []\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 4852--4852 []\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 4854--4854 []\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)$id.med[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4864--4864 [] \T1/pcr/m/n/9 ## We see 3 + 2 + 2 = 7 clear "outlier"s or "wrong group" o bservations:[] [2704] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4868--4868 [] \T1/pcr/m/n/9 ## Apart from these, what are the robust ranges of indices? - - Robust range:[] [2705]) (./codetools-pkg.tex [2706] Chapter 21. Overfull \hbox (24.78088pt too wide) in paragraph at lines 16--16 [] \T1/pcr/m/n/10 suppressParamUnused = !all, suppressFundefMismatch = FALSE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17--17 [] \T1/pcr/m/n/10 suppressLocalUnused = FALSE, suppressNoLocalFun = !all,[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 18--18 [] \T1/pcr/m/n/10 skipWith = FALSE, suppressUndefined = dfltSuppress Undefined,[] [2707] Underfull \hbox (badness 10000) in paragraph at lines 65--70 []\T1/pcr/m/n/10 checkUsageEnv []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 checkUsage Package []\T1/ptm/m/n/10 are con-ve-nience func-tions that ap-ply [2708] Overfull \hbox (18.78088pt too wide) in paragraph at lines 118--118 []\T1/pcr/m/n/10 makeConstantFolder(..., leaf, handler, call, exit, isLocal, f oldable,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 121--121 []\T1/pcr/m/n/10 makeUsageCollector(fun, ..., name, enterLocal, enterGlobal, e nterInternal,[] [2709] [2710] [2711]) (./foreign-pkg.tex [2712] Chapter 22. Underfull \hbox (badness 10000) in paragraph at lines 33--37 []\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o ut of a Data Underfull \hbox (badness 10000) in paragraph at lines 33--37 \T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able as [][]$\T1/p cr/m/n/10 https : / / support . Underfull \hbox (badness 10000) in paragraph at lines 33--37 \T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap ers / 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 . [2713] 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 [2714] [2715] Underfull \hbox (badness 3601) in paragraph at lines 237--245 []\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 , [2716] Overfull \hbox (12.78088pt too wide) in paragraph at lines 295--295 []\T1/pcr/m/n/10 read.epiinfo(file, read.deleted = FALSE, guess.broken.dates = FALSE, [2717] [2718] [2719] Overfull \hbox (48.78088pt too wide) in paragraph at lines 461--461 [] \T1/pcr/m/n/10 trim_values = TRUE, reencode = NA, use.missings = t o.data.frame,[] [2720] Overfull \hbox (30.78088pt too wide) in paragraph at lines 462--462 [] \T1/pcr/m/n/10 sub = ".", add.undeclared.levels = c("sort", "appen d", "no"),[] Underfull \hbox (badness 2846) in paragraph at lines 505--514 []\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 505--514 \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 505--514 \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 515--518 []\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 515--518 \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 [2721] Underfull \hbox (badness 10000) in paragraph at lines 549--557 []\T1/ptm/m/n/10 URL [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / en-[]us / windows / win32 / intl / Underfull \hbox (badness 7613) in paragraph at lines 567--573 []\T1/ptm/m/n/10 There may be at-tributes []\T1/pcr/m/n/10 "label.table" []\T1/ ptm/m/n/10 and []\T1/pcr/m/n/10 "variable.labels"[]\T1/ptm/m/n/10 . At-tribute [2722] Overfull \hbox (20.58041pt too wide) in paragraph at lines 622--622 []\T1/pcr/m/n/9 ### hence may need some special treatment with appropriate arg ument settings.[] Overfull \hbox (112.38031pt too wide) in paragraph at lines 623--623 []\T1/pcr/m/n/9 ### Expect lots of warnings as value labels (corresponding to R factor labels) are uncomplete,[] [2723] Overfull \hbox (9.78043pt too wide) in paragraph at lines 656--656 []\T1/pcr/m/n/9 ## Long Strings (>255 chars) are imported in consecutive separ ate variables[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 660--660 []\T1/pcr/m/n/9 cat.long.string <- function(x, w=70) cat(paste(strwrap(x, widt h=w), "\n"))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 667--667 []\T1/pcr/m/n/9 long.string <- apply(x[,c("string_500", "STRIN0")], 1, paste, collapse="")[] [2724] [2725] Underfull \hbox (badness 10000) in paragraph at lines 811--812 Overfull \hbox (4.38043pt too wide) in paragraph at lines 821--821 []\T1/pcr/m/n/9 iris.s <- read.systat(system.file("files/Iris.syd", package="f oreign")[1])[] [2726] Underfull \hbox (badness 10000) in paragraph at lines 868--872 []\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o ut of a Data Underfull \hbox (badness 10000) in paragraph at lines 868--872 \T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able at [][]$\T1/p cr/m/n/10 https : / / support . Underfull \hbox (badness 10000) in paragraph at lines 868--872 \T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap ers / Overfull \hbox (74.28088pt too wide) in paragraph at lines 868--872 \T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s et-[]in-[]sas-[]transport-[]xport-[]format . [2727] Overfull \hbox (24.78088pt too wide) in paragraph at lines 899--899 [] \T1/pcr/m/n/10 data.restore(file, print = FALSE, verbose = FALSE, env = .G lobalEnv) [2728] Overfull \hbox (0.78088pt too wide) in paragraph at lines 963--963 []\T1/pcr/m/n/10 write.arff(x, file, eol = "\n", relation = deparse(substitute (x))) [2729] [2730] Underfull \hbox (badness 10000) in paragraph at lines 1075--1076 [][][]$\T1/pcr/m/n/10 https : / / www . clicketyclick . dk / databases / xbase / format / data _ types . Overfull \hbox (24.78088pt too wide) in paragraph at lines 1111--1111 [] \T1/pcr/m/n/10 convert.factors = c("labels", "string", "numeric", "codes"))[] [2731] [2732] Underfull \hbox (badness 10000) in paragraph at lines 1268--1274 []\T1/ptm/m/n/10 The work for this func-tion is done by []\T1/pcr/m/n/10 foreig n:::writeForeignStata[]\T1/ptm/m/n/10 , [2733] Underfull \hbox (badness 2088) in paragraph at lines 1294--1297 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 package="SPSS"[]\T1/ptm/m/n/10 , as a sid e ef-fect, the dec-i-mal in-di-ca-tor is al-ways set by []\T1/pcr/m/n/10 SET [2734]) (./lattice-pkg.tex Chapter 23. [2735] Underfull \hbox (badness 2073) in paragraph at lines 117--121 \T1/ptm/m/n/10 pro-vide a holis-tic in-tro-duc-tion to the Trel-lis paradigm: [ ][]$\T1/pcr/m/n/10 http : / / web . archive . org / Underfull \hbox (badness 10000) in paragraph at lines 117--121 \T1/pcr/m/n/10 web / 20081020164041 / http : / / cm . bell-[]labs . com / cm / ms / departments / sia / [2736] [2737] Overfull \hbox (12.78088pt too wide) in paragraph at lines 286--286 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 290--290 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .xyplot"),[] [2738] Overfull \hbox (42.78088pt too wide) in paragraph at lines 298--298 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defaul t.dotplot"),[] Overfull \hbox (54.78088pt too wide) in paragraph at lines 305--305 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau lt.barchart"),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 313--313 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa ult.stripplot"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 334--334 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 338--338 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .bwplot"),[] [2739] [2740] [2741] [2742] Underfull \hbox (badness 1221) in paragraph at lines 652--655 []\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 [2743] [2744] [2745] [2746] Underfull \hbox (badness 2005) in paragraph at lines 990--1002 []\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 990--1002 \T1/ptm/m/n/10 some-times ap-pro-pri-ate to sup-press drop-ping to pre-serve a use-ful lay-out. [2747] Underfull \hbox (badness 1661) in paragraph at lines 1103--1109 []\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 [2748] [2749] Underfull \hbox (badness 1097) in paragraph at lines 1229--1231 []\T1/ptm/m/n/10 Logical flag, whether leg-end should have a Underfull \hbox (badness 1917) in paragraph at lines 1243--1244 []\T1/ptm/m/n/10 Space be-tween col-umn blocks, in ad-di-tion to [2750] [2751] [2752] Underfull \hbox (badness 1540) in paragraph at lines 1483--1489 []\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 , [2753] Underfull \hbox (badness 10000) in paragraph at lines 1570--1587 [][][]\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 , [2754] Overfull \hbox (36.7804pt too wide) in paragraph at lines 1658--1658 [] \T1/pcr/m/n/9 text = list(lab = as.character(unique(Orchar dSprays$rowpos))),[] [2755] Underfull \hbox (badness 2012) in paragraph at lines 1712--1714 []\T1/ptm/m/n/10 additional ar-gu-ments passed to [][][]\T1/pcr/m/n/10 xyplot[] [][][]\T1/ptm/m/n/10 , which may pass them on to Underfull \hbox (badness 6808) in paragraph at lines 1742--1746 []\T1/ptm/m/n/10 graphical ar-gu-ments, which are pro-cessed and even-tu-ally p assed to [2756] Underfull \hbox (badness 10000) in paragraph at lines 1759--1762 []\T1/ptm/m/n/10 style set-tings be-yond the stan-dard []\T1/pcr/m/n/10 col[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1 /ptm/m/n/10 , etc; see Underfull \hbox (badness 10000) in paragraph at lines 1812--1814 []\T1/ptm/m/n/10 Gabor Grothendieck, Achim Zeileis, Deep-ayan Sarkar and Fe-lix An-drews [2757] [2758] [2759] [2760] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2045--2045 [] \T1/pcr/m/n/10 auto.key = lattice.getOption("default.args")$auto .key,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2058--2058 [] \T1/pcr/m/n/10 lattice.getOption("prepanel.default.densitypl ot"),[] [2761] Underfull \hbox (badness 10000) in paragraph at lines 2128--2131 []\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 2128--2131 []\T1/pcr/m/n/10 lattice.getOption("histogram.breaks") []\T1/ptm/m/n/10 is firs t checked. If [2762] [2763] [2764] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2332--2332 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2336--2336 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .qqmath"),[] [2765] [2766] [2767] [2768] Overfull \hbox (60.78088pt too wide) in paragraph at lines 2676--2676 [] \T1/pcr/m/n/10 panel = if (useRaster) lattice.getOption("panel.lev elplot.raster")[] [2769] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2708--2708 [] \T1/pcr/m/n/10 lattice.getOption("prepanel.default.contourpl ot"),[] Underfull \vbox (badness 10000) has occurred while \output is active [2770] Underfull \hbox (badness 2913) in paragraph at lines 2778--2783 []\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 2778--2783 []\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 [2771] [2772] Underfull \hbox (badness 6758) in paragraph at lines 2906--2910 []\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 2906--2910 \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 2912--2914 []\T1/ptm/m/n/10 Logical flag, passed to [][][]\T1/pcr/m/n/10 rasterGrob[][][] []\T1/ptm/m/n/10 when Underfull \hbox (badness 1609) in paragraph at lines 2964--2970 []\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 2964--2970 \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 2964--2970 \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 2988--2992 []\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 [2773] [2774] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3091--3091 [] \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 3092--3092 [] \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 3093--3093 [] \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 3104--3104 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default. cloud"),[] [2775] Overfull \hbox (66.78088pt too wide) in paragraph at lines 3116--3116 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa ult.wireframe"),[] Underfull \hbox (badness 2913) in paragraph at lines 3174--3181 []\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 3174--3181 []\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 [2776] [2777] [2778] [2779]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.parallel}) has been already used, duplicate ignored \relax l.3462 \aliasA{parallel}{B\_08\_splom}{parallel} [2780] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3504--3504 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default. splom"),[] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3527--3527 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau lt.parallel"),[] [2781] [2782] [2783] [2784] [2785] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3863--3863 []\T1/pcr/m/n/10 oneway(formula, data, location=mean, spread=function(x) sqrt( var(x))) [2786] Underfull \hbox (badness 2277) in paragraph at lines 3949--3953 []\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 3949--3953 \T1/ptm/m/n/10 For back-compatibility, this is ini-tially (when lat-tice is loa ded) set to [2787] [2788] Overfull \hbox (120.78088pt too wide) in paragraph at lines 4046--4046 [] \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 4048--4048 [] \T1/pcr/m/n/10 region = hcl.colors(14, palette = "YlGnBu", re v = TRUE),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 4055--4055 [] \T1/pcr/m/n/10 reference = "gray90", bg = "transparent", fg = " black",[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 4056--4056 [] \T1/pcr/m/n/10 strip.bg = rep("gray95", 7), strip.fg = rep("gra y70", 7),[] [2789] [2790] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4199--4199 []\T1/pcr/m/n/10 trellis.par.set(name, value, ..., theme, warn = TRUE, strict = FALSE) Underfull \hbox (badness 1173) in paragraph at lines 4208--4212 []\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 Underfull \hbox (badness 3219) in paragraph at lines 4235--4237 []\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 4252--4256 []\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 [2791] Underfull \hbox (badness 5161) in paragraph at lines 4317--4321 []\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 4317--4321 \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 [2792] [2793] Underfull \hbox (badness 1067) in paragraph at lines 4435--4445 []\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 4435--4445 []\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 4435--4445 []\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 4435--4445 []\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 4435--4445 []\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 Underfull \hbox (badness 1701) in paragraph at lines 4460--4463 []\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 4463--4465 []\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 [2794] [2795] Underfull \hbox (badness 2932) in paragraph at lines 4606--4611 []\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 , [2796] [2797] [2798] [2799] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4882--4882 []\T1/pcr/m/n/9 p12 <- densityplot( ~ height | voice.part, data = singer, xlab = "Height")[] [2800] [2801] [2802] Underfull \hbox (badness 10000) in paragraph at lines 5069--5072 []\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 . [2803] Underfull \hbox (badness 1442) in paragraph at lines 5201--5204 []\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 [2804] [2805] [2806] [2807] [2808] [2809] Underfull \hbox (badness 3646) in paragraph at lines 5540--5543 [][][]\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 5570--5570 [] \T1/pcr/m/n/10 bg = trellis.par.get("strip.background")$col[wh ich.given],[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5571--5571 [] \T1/pcr/m/n/10 fg = trellis.par.get("strip.shingle")$col[which .given],[] [2810] Underfull \hbox (badness 10000) in paragraph at lines 5659--5662 []\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 5659--5662 []\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 [2811] Underfull \hbox (badness 1635) in paragraph at lines 5685--5690 []\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 [2812] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5836--5836 []\T1/pcr/m/n/10 panel.identify.qqmath(x, distribution, groups, subscripts, la bels,[] [2813] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5850--5850 []\T1/pcr/m/n/10 panel.link.splom(threshold = 18, verbose = getOption("verbose "), ...)[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5851--5851 []\T1/pcr/m/n/10 panel.brush.splom(threshold = 18, verbose = getOption("verbos e"), ...)[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5854--5854 []\T1/pcr/m/n/10 trellis.vpname(name = c("position", "split", "split.location" , "toplevel",[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5857--5857 [] \T1/pcr/m/n/10 "xlab", "ylab", "xlab.top", "ylab.rig ht", "page"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 5859--5859 [] \T1/pcr/m/n/10 side = c("left", "top", "right", "bottom", "in side"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5865--5865 [] \T1/pcr/m/n/10 which.given = lattice.getStatus("current.whi ch.given",[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5866--5866 [] \T1/pcr/m/n/10 prefix = pre fix),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5867--5867 [] \T1/pcr/m/n/10 which.panel = lattice.getStatus("current.whi ch.panel",[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5868--5868 [] \T1/pcr/m/n/10 prefix = pre fix),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5869--5869 [] \T1/pcr/m/n/10 column = lattice.getStatus("current.focus.co lumn",[] Underfull \hbox (badness 10000) in paragraph at lines 5885--5887 []\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 5896--5898 []\T1/ptm/m/n/10 an op-tional vec-tor of la-bels as-so-ci-ated with each point. De-faults to [2814] [2815] Underfull \hbox (badness 2538) in paragraph at lines 6021--6025 \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 6032--6039 []\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 6032--6039 []\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 [2816] [2817] Underfull \hbox (badness 10000) in paragraph at lines 6185--6189 [][][]\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 , [2818] [2819] Underfull \hbox (badness 4242) in paragraph at lines 6332--6337 []\T1/ptm/m/n/10 Graphical pa-ram-e-ters for the bars. By de-fault, the trel-li s pa-ram-e- [2820] [2821] Underfull \hbox (badness 3601) in paragraph at lines 6448--6453 []\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 6448--6453 \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 [2822] Overfull \hbox (60.78088pt too wide) in paragraph at lines 6536--6536 [] \T1/pcr/m/n/10 shade.colors.palette = trellis.par.get("shade.co lors")$palette,[] [2823] [2824] [2825] Underfull \hbox (badness 10000) in paragraph at lines 6735--6739 []\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 6740--6742 []\T1/ptm/m/n/10 numeric, be-tween 0 and 1, giv-ing a min-i-mum sat-u-ra-tion i n [2826] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6836--6836 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Inferno"),[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6839--6839 [] \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 6842--6842 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Harmonic"),[] [2827] [2828] [2829] [2830] [2831] [2832] Underfull \hbox (badness 1320) in paragraph at lines 7204--7211 []\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 7204--7211 \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 [2833] Overfull \hbox (0.78088pt too wide) in paragraph at lines 7279--7279 [] \T1/pcr/m/n/10 varname = NULL, limits, at = NULL, labels = NULL,[] [2834] Underfull \hbox (badness 10000) in paragraph at lines 7309--7313 []\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 7309--7313 []\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 [2835] Underfull \hbox (badness 10000) in paragraph at lines 7414--7417 \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 7439--7439 [] \T1/pcr/m/n/9 function(i,j) hcl.colors(11)[i+j-1]) ## rainbow( 11, start=.12, end=.5)[i+j-1])[] [2836] [2837] Underfull \hbox (badness 2012) in paragraph at lines 7580--7583 []\T1/ptm/m/n/10 Further ar-gu-ments, of-ten graph-i-cal pa-ram-e-ters, even-tu -ally passed on to [2838] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7626--7626 [] \T1/pcr/m/n/9 panel.qqmath(..., f.value = ppoints(100), ta ils.n = 50))[] [2839] [2840] [2841] Underfull \hbox (badness 1939) in paragraph at lines 7815--7823 []\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 7815--7823 \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 Underfull \hbox (badness 2772) in paragraph at lines 7838--7841 []\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 [2842] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7909--7909 [] \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 7919--7919 [] \T1/pcr/m/n/9 scales = list(alternating = c(0, 2), tck = c(0, 0.7), d raw = FALSE),[] [2843] Overfull \hbox (12.78088pt too wide) in paragraph at lines 7980--7980 [] \T1/pcr/m/n/10 font, fontfamily, fontface, cex, ..., identifier, nam e.type)[] Overfull \hbox (72.78088pt too wide) in paragraph at lines 7985--7985 [] \T1/pcr/m/n/10 adj = c(0.5, 0.5), pos = NULL, offset = 0.5, ..., ident ifier, name.type)[] [2844] [2845] [2846] Overfull \hbox (66.78088pt too wide) in paragraph at lines 8170--8170 []\T1/pcr/m/n/10 panel.grid(h=3, v=3, col, col.line, lty, lwd, x, y, ..., iden tifier = "grid")[] [2847] Underfull \hbox (badness 1436) in paragraph at lines 8225--8231 []\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 [2848] Overfull \hbox (42.18039pt too wide) in paragraph at lines 8355--8355 [] \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 8369--8369 [] \T1/pcr/m/n/9 args = list(mean = mean(x), sd = sd(x)), ...)[] [2849] [2850] [2851] [2852] [2853] [2854] [2855] Underfull \hbox (badness 10000) in paragraph at lines 8794--8797 []\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 8794--8797 []\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 [2856] [2857] Overfull \hbox (24.78088pt too wide) in paragraph at lines 8969--8969 []\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 8970--8970 []\T1/pcr/m/n/10 prepanel.default.histogram(x, breaks, equal.widths, type, nin t, ...)[] [2858] Overfull \hbox (30.78088pt too wide) in paragraph at lines 8982--8982 []\T1/pcr/m/n/10 prepanel.default.densityplot(x, darg, groups, weights, subscr ipts, ...)[] Underfull \hbox (badness 3118) in paragraph at lines 9001--9004 []\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 [2859] Underfull \hbox (badness 1515) in paragraph at lines 9077--9081 []\T1/ptm/m/n/10 numeric vec-tor of length two, rep-re-sent-ing prob-a-bil-i-ti es. If used with [2860] [2861] Underfull \hbox (badness 6316) in paragraph at lines 9183--9188 []\T1/ptm/m/n/10 which packet (counted ac-cord-ing to the packet or-der, de-scr ibed in [2862] Overfull \hbox (47.58038pt too wide) in paragraph at lines 9293--9293 [] \T1/pcr/m/n/9 ans$bottom$labels$labels <- parse(text = ans$b ottom$labels$labels)[] [2863] [2864] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9432--9432 []\T1/pcr/m/n/9 xyplot(sunspot.year ~ time(sunspot.year) | equal.count(time(su nspot.year)),[] [2865] Underfull \hbox (badness 1028) in paragraph at lines 9491--9495 \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, [2866] [2867] [2868] [2869] [2870] [2871] [2872] Underfull \hbox (badness 7238) in paragraph at lines 9955--9959 []\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 9955--9959 []\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 , [2873] [2874] [2875]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.melanoma}) has been already used, duplicate ignored \relax l.10186 \aliasA{melanoma}{H\_melanoma}{melanoma} [2876] [2877] [2878] Underfull \hbox (badness 10000) in paragraph at lines 10348--10353 \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 10421--10421 [] \T1/pcr/m/n/9 par.settings = simpleTheme(pch = 16), auto.key = list( columns = 2),[] [2879] [2880]) (./mgcv-pkg.tex Chapter 24. [2881] [2882] 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,[] [2883] Overfull \hbox (72.78088pt 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 184--188 \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 209--214 \T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known scale. [2884] [2885] [2886] [2887] Underfull \hbox (badness 10000) in paragraph at lines 379--386 [][][]\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 379--386 [][][]\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 379--386 [][][]\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 , [2888] Overfull \hbox (4.38043pt too wide) in paragraph at lines 422--422 []\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)+[] [2889] [2890] [2891] Underfull \hbox (badness 2922) in paragraph at lines 634--635 []\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 [2892] [2893] Underfull \hbox (badness 1406) in paragraph at lines 704--705 []\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 [2894] [2895] Underfull \hbox (badness 1158) in paragraph at lines 814--816 []\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 [2896] Underfull \hbox (badness 1259) in paragraph at lines 877--878 []\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). [2897] Underfull \vbox (badness 10000) has occurred while \output is active [2898] [2899] [2900] [2901] [2902] [2903] [2904] [2905] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1337--1337 []\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 1338--1338 []\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 1355--1355 [] \T1/pcr/m/n/9 plot(b$y[oy],rs[oy,ii[1]],ylim=c(-3,3),type="l",ylab="scor e residuals",[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1367--1367 []\T1/pcr/m/n/9 bs <- gam(cbind(time,strata)~s(age,by=sex)+sex+s(nodes)+perfor +rx+obstruct[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1376--1376 []\T1/pcr/m/n/9 if (i==1) plot(bs$family$data$tr[ind],exp(-bs$family$data$h[in d]),type="l",[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1378--1378 [] \T1/pcr/m/n/9 lines(bs$family$data$tr[ind],exp(-bs$family$data$h[ind]) ,lwd=2,col=i)[] Underfull \vbox (badness 10000) has occurred while \output is active [2906] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1409--1409 []\T1/pcr/m/n/9 b <- gam(t~s(x0)+s(x1)+s(x2,k=15)+s(x3),family=cox.ph,weights= d,data=surv)[] Underfull \vbox (badness 10000) has occurred while \output is active [2907] [2908] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1492--1492 [] \T1/pcr/m/n/9 if (inter) prg <- txtProgressBar(min = 0, max = length(sid), initial = 0,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1503--1503 [] \T1/pcr/m/n/9 if (um[[et]][1]==max(tr)&&um[[status]][1]==1) um[[event]][ nrow(um)] <- 1[] Underfull \vbox (badness 10000) has occurred while \output is active [2909] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1542--1542 []\T1/pcr/m/n/9 pd <- data.frame(lapply(X=di,FUN=app,t=di$day,to=te)) ## inter polate to te[] [2910] [2911] [2912] [2913] [2914] [2915] [2916] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1939--1939 []\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)[] [2917] [2918] [2919] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2164--2164 []\T1/pcr/m/n/10 fixDependence(X1,X2,tol=.Machine$double.eps^.5,rank.def=0,str ict=FALSE) [2920] [2921] [2922] [2923] [2924] [2925] [2926] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2569--2569 []\T1/pcr/m/n/10 gam(formula,family=gaussian(),data=list(),weights=NULL,subset =NULL,[] Underfull \hbox (badness 1728) in paragraph at lines 2581--2584 []\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 2594--2598 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [2927] Underfull \hbox (badness 1043) in paragraph at lines 2620--2626 \T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known scale. [2928] [2929] [2930] Underfull \hbox (badness 1043) in paragraph at lines 2789--2795 \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 [2931] [2932] Underfull \hbox (badness 10000) in paragraph at lines 2925--2931 [][][]\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 2925--2931 [][][]\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 2925--2931 [][][]\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 , [2933] Underfull \vbox (badness 10000) has occurred while \output is active [2934] Underfull \vbox (badness 10000) has occurred while \output is active [2935] [2936] [2937] Overfull \hbox (78.78088pt too wide) in paragraph at lines 3242--3242 []\T1/pcr/m/n/10 gam.control(nthreads=1,ncv.threads=1,irls.reg=0.0,epsilon = 1 e-07, maxit = 200, [2938] [2939] [2940] [2941] [2942] [2943] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3583--3583 [] \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 3586--3586 [] \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 3587--3587 [] \T1/pcr/m/n/10 pearson.extra=0,dev.extra=0,n.true=-1,Sl=NULL,nei=NU LL,...)[] [2944] [2945] [2946] [2947] [2948] [2949] [2950] [2951] Underfull \hbox (badness 5189) in paragraph at lines 4065--4069 []\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 [2952] [2953] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4182--4182 []\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 [2954] [2955] [2956] Underfull \hbox (badness 1184) in paragraph at lines 4352--4356 []\T1/ptm/m/n/10 list of the square root penal-ties: last en-try is root of fix ed penalty, if [2957] [2958] [2959] [2960] [2961] [2962] [2963] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4798--4798 [] \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)+[] [2964] [2965] [2966] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4948--4948 []\T1/pcr/m/n/10 gamlss.gH(X, jj, l1, l2, i2, l3 = 0, i3 = 0, l4 = 0, i4 = 0, d1b = 0, [2967] [2968] Underfull \hbox (badness 1142) in paragraph at lines 5075--5079 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [2969] Underfull \hbox (badness 10000) in paragraph at lines 5147--5156 []\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 [2970] [2971] Underfull \hbox (badness 5970) in paragraph at lines 5264--5270 [][][]\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 5264--5270 [][][]\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 . [2972] Underfull \vbox (badness 10000) has occurred while \output is active [2973] [2974] [2975] [2976] Underfull \hbox (badness 1577) in paragraph at lines 5614--5617 []\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 Underfull \hbox (badness 2181) in paragraph at lines 5621--5622 []\T1/ptm/m/n/10 one sided for-mula con-tain-ing vari-ables needed for pre-dic- tion, used by [2977] [2978] [2979] [2980] [2981] [2982] [2983] Underfull \hbox (badness 6708) in paragraph at lines 6009--6010 []\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 [2984] [2985] Overfull \hbox (58.38037pt too wide) in paragraph at lines 6058--6058 [] \T1/pcr/m/n/9 ## example using a scale location model for the motorcycle d ata. A simple plotting[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6083--6083 [] \T1/pcr/m/n/9 } else lines(xg,predict(din,xg)$y,col=lcol[j],lwd=lwd[j] ,lty=lty[j])[] [2986] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6112--6112 [] \T1/pcr/m/n/9 fv <- predict(b,se=TRUE) ## usual Gaussian approximation, fo r comparison[] [2987] [2988] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6234--6234 [] \T1/pcr/m/n/9 (1+exp(-10*(x[201:300]-.5)))-0.9933071) + z*(1-z)*5 + r norm(100)*.4[] [2989] [2990] [2991] [2992] [2993] Overfull \hbox (24.78088pt too wide) in paragraph at lines 6571--6571 []\T1/pcr/m/n/10 jagam(formula,family=gaussian,data=list(),file,weights=NULL,n a.action, [2994] Overfull \hbox (36.78088pt too wide) in paragraph at lines 6573--6573 []\T1/pcr/m/n/10 control=gam.control(),centred=TRUE,sp.prior = "gamma",diagona lize=FALSE)[] Underfull \hbox (badness 1142) in paragraph at lines 6594--6598 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [2995] [2996] [2997] Underfull \vbox (badness 10000) has occurred while \output is active [2998] [2999] [3000] Overfull \hbox (72.78088pt too wide) in paragraph at lines 6913--6913 []\T1/pcr/m/n/10 ldTweedie(y,mu=y,p=1.5,phi=1,rho=NA,theta=NA,a=1.001,b=1.999, all.derivs=FALSE) [3001] [3002] [3003] [3004] Underfull \vbox (badness 10000) has occurred while \output is active [3005] Underfull \vbox (badness 10000) has occurred while \output is active [3006] [3007] [3008] Overfull \hbox (52.98038pt too wide) in paragraph at lines 7345--7345 []\T1/pcr/m/n/9 "The world is ruled by idiots because only an idiot would want to rule the world.",[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 7372--7372 [] \T1/pcr/m/n/10 .Machine$double.eps^0.5),extra.rss=0,n.score=length(y), nthreads=1)[] [3009] [3010] [3011] [3012] [3013] [3014] [3015] [3016] [3017] Underfull \hbox (badness 1242) in paragraph at lines 7915--7916 []\T1/ptm/m/n/10 Development of mgcv ver-sion 1.8 was part funded by EP-SRC gra nts EP/K005251/1 and [3018] [3019] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8002--8002 []\T1/pcr/m/n/9 ## Alternative, better scaling example, using the discrete opt ion with bam...[] [3020] [3021] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8065--8065 []\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 8084--8084 [] \T1/pcr/m/n/9 dat1[[dname[i]]][dat1[[by.name]]] <- mean(dat1[[dname[i]]] ,na.rm=TRUE)[] Underfull \vbox (badness 10000) has occurred while \output is active [3022] [3023] [3024] [3025] [3026] [3027] [3028] [3029] [3030] [3031] [3032] [3033] [3034] [3035] [3036] [3037] [3038] [3039] Underfull \vbox (badness 10000) has occurred while \output is active [3040] [3041] Underfull \hbox (badness 10000) in paragraph at lines 9309--9312 []\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 9309--9312 []\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 9309--9312 []\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 . [3042] Underfull \hbox (badness 10000) in paragraph at lines 9365--9368 []\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 9365--9368 []\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 [3043] [3044] [3045] Overfull \hbox (18.78088pt too wide) in paragraph at lines 9585--9585 []\T1/pcr/m/n/10 plot(x,residuals=FALSE,rug=NULL,se=TRUE,pages=0,select=NULL,s cale=-1,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9586--9586 [] \T1/pcr/m/n/10 n=100,n2=40,n3=3,pers=FALSE,theta=30,phi=30,jit=FALS E,xlab=NULL,[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 9589--9589 [] \T1/pcr/m/n/10 trans=I,seWithMean=FALSE,unconditional=FALSE,by.resi ds=FALSE,[] [3046] [3047] [3048] Underfull \hbox (badness 1629) in paragraph at lines 9747--9752 []\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 [3049] [3050] [3051] [3052] Overfull \hbox (84.78088pt too wide) in paragraph at lines 9959--9959 [] \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 9996--10000 []\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- [3053] [3054] [3055] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10129--10129 [] \T1/pcr/m/n/10 na.action=na.pass,unconditional=FALSE,iterms.type=NUL L,...)[] [3056] [3057] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10290--10290 []\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 10291--10291 []\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))[] [3058] Underfull \vbox (badness 10000) has occurred while \output is active [3059] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10410--10410 [] \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[] Underfull \vbox (badness 10000) has occurred while \output is active [3060] Underfull \hbox (badness 1205) in paragraph at lines 10448--10449 []\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 10448--10449 \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 10454--10459 []\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 [3061] Underfull \hbox (badness 1205) in paragraph at lines 10538--10539 []\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 10538--10539 \T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are as for [3062] Underfull \hbox (badness 10000) in paragraph at lines 10607--10610 []\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 10607--10610 [][][]\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, [3063] [3064] [3065] Underfull \hbox (badness 1253) in paragraph at lines 10737--10739 []\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, [3066] [3067] [3068] [3069] [3070] Underfull \hbox (badness 1946) in paragraph at lines 10990--10997 []\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 10990--10997 \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 10990--10997 \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 Underfull \hbox (badness 2846) in paragraph at lines 10998--11001 []\T1/ptm/m/n/10 Alternatively, but less straight-for-wardly, the []\T1/pcr/m/n /10 paraPen []\T1/ptm/m/n/10 ar-gu-ment to [][][]\T1/pcr/m/n/10 gam[][][] []\T1 /ptm/m/n/10 can be used: Underfull \hbox (badness 5862) in paragraph at lines 10998--11001 \T1/ptm/m/n/10 see [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/ptm/m/n/10 . If s mooth-ing pa-ram-e-ter es-ti-ma-tion is by ML or REML (e.g. [3071] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11064--11064 []\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 11074--11074 []\T1/pcr/m/n/9 ## The effect of the new factor levels (or any interaction inv olving them)[] [3072] Underfull \hbox (badness 10000) in paragraph at lines 11105--11108 []\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 , [3073] [3074] [3075] [3076] [3077] Overfull \hbox (36.78088pt too wide) in paragraph at lines 11407--11407 []\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) [3078] [3079] [3080] [3081] [3082] [3083] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11780--11780 [] \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 11794--11794 []\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 [3084] [3085] Underfull \hbox (badness 3861) in paragraph at lines 11896--11899 []\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 11905--11905 []\T1/pcr/m/n/10 Sl.initial.repara(Sl, X, inverse = FALSE, both.sides = TRUE, cov = TRUE,[] [3086] Underfull \hbox (badness 10000) in paragraph at lines 11922--11926 []\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 11962--11966 []\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- [3087] [3088] [3089] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12106--12106 [] \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 12117--12122 []\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 [3090] Underfull \hbox (badness 1803) in paragraph at lines 12194--12198 \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 12206--12218 []\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 [3091] Underfull \hbox (badness 2401) in paragraph at lines 12223--12227 []\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 12223--12227 \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 , [3092] [3093] [3094] Underfull \hbox (badness 6876) in paragraph at lines 12418--12424 [][][]\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 [3095] Underfull \hbox (badness 10000) in paragraph at lines 12459--12460 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3096] [3097] Underfull \hbox (badness 10000) in paragraph at lines 12577--12578 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3098] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12631--12631 [] \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))+[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12643--12643 [] \T1/pcr/m/n/9 ## now a model with first order penalty evaluated over (-.5, 1.5) (black)[] [3099] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12655--12655 [] \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 12660--12660 [] \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 12666--12666 [] \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 12667--12667 [] \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:[] [3100] Underfull \hbox (badness 10000) in paragraph at lines 12736--12738 []\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 12736--12738 \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 [3101] [3102] Underfull \hbox (badness 10000) in paragraph at lines 12866--12867 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3103] [3104] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12947--12947 []\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 12948--12948 []\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[] [3105] [3106] Underfull \hbox (badness 10000) in paragraph at lines 13101--13102 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3107] [3108] [3109] [3110] [3111] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13351--13351 []\T1/pcr/m/n/9 b <- gam(crime ~ s(district,bs="mrf",k=20,xt=xt),data=columb,m ethod="REML")[] [3112] Underfull \hbox (badness 10000) in paragraph at lines 13412--13414 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3113] [3114] Underfull \hbox (badness 10000) in paragraph at lines 13571--13574 []\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 13571--13574 \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 13571--13574 []\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" [3115] [3116] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13657--13657 []\T1/pcr/m/n/9 b <- c(rnorm(nb/2)*2,rnorm(nb/2)*.5) ## random effect now with 2 variances[] [3117] Underfull \hbox (badness 10000) in paragraph at lines 13702--13708 []\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 13702--13708 []\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- [3118] [3119] [3120] Overfull \hbox (36.7804pt too wide) in paragraph at lines 13916--13916 []\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 [3121] Underfull \vbox (badness 10000) has occurred while \output is active [3122] Underfull \hbox (badness 10000) in paragraph at lines 14019--14027 [][][]\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 14045--14046 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3123] [3124] [3125] Underfull \hbox (badness 7613) in paragraph at lines 14190--14193 []\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 [3126] Underfull \hbox (badness 1546) in paragraph at lines 14211--14212 []\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- Overfull \hbox (128.58029pt too wide) in paragraph at lines 14257--14257 []\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")[] [3127] [3128] [3129] Underfull \hbox (badness 3396) in paragraph at lines 14403--14406 [][][]\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 14448--14450 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3130] [3131] [3132] [3133] [3134] [3135] Underfull \hbox (badness 10000) in paragraph at lines 14739--14741 []\T1/pcr/m/n/10 bs="fs" []\T1/ptm/m/n/10 A spe-cial smoother class (see Underfull \hbox (badness 10000) in paragraph at lines 14769--14773 [][][]\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[][][] [][]tprs[][][][]\T1/ptm/m/n/10 ,[ ][][]\T1/pcr/m/n/10 Duchon.spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cubic.regression.spline[][][][]\T1/ptm/m/n/10 ,[][][]\T1/pcr/m/n/10 p.spline[][ ][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14769--14773 [][][]\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 14769--14773 [][][]\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 , [3136] [3137] [3138] [3139] [3140] Underfull \hbox (badness 2158) in paragraph at lines 15059--15059 []\T1/ptm/m/it/10 Extract smooth-ing pa-ram-e-ter es-ti-ma-tor co-vari-ance ma- trix from [3141] [3142] Overfull \hbox (48.78088pt too wide) in paragraph at lines 15138--15138 []\T1/pcr/m/n/10 spasm.sp(object,sp,w=rep(1,object$nobs),get.trH=TRUE,block=0, centre=FALSE)[] [3143] [3144] Overfull \hbox (12.78088pt too wide) in paragraph at lines 15272--15272 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars "),...)[] [3145] [3146] Underfull \hbox (badness 4846) in paragraph at lines 15403--15406 []\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 [3147] [3148] [3149] [3150] [3151] [3152] [3153] [3154] [3155] [3156] [3157] [3158] [3159] [3160] [3161] [3162] [3163] [3164] [3165] [3166] Overfull \hbox (120.78088pt too wide) in paragraph at lines 16621--16621 []\T1/pcr/m/n/10 vcov(object, sandwich=FALSE, freq = FALSE, dispersion = NULL, unconditional=FALSE, ...)[] [3167] Underfull \hbox (badness 1715) in paragraph at lines 16643--16644 []\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 [3168] [3169] [3170] Overfull \hbox (54.78088pt too wide) in paragraph at lines 16833--16833 []\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 16835--16835 []\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 16837--16837 []\T1/pcr/m/n/10 diagXVXd(X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,rt= NULL)[] [3171] Underfull \hbox (badness 10000) in paragraph at lines 16857--16858 []\T1/ptm/m/n/10 Negative to ig-nore. Oth-er-wise sum rows Underfull \hbox (badness 1668) in paragraph at lines 16857--16858 []\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 [3172] Underfull \vbox (badness 10000) has occurred while \output is active [3173] [3174] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17045--17045 []\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 17046--17046 []\T1/pcr/m/n/9 ## it is possible for the linear predictor to be almost unboun ded in regions[] [3175] Overfull \hbox (25.98041pt too wide) in paragraph at lines 17058--17058 []\T1/pcr/m/n/9 ## 3. Refit fixing the theta parameters at their estimated val ues, to check we[] [3176] [3177] [3178]) (./nlme-pkg.tex Chapter 25. [3179] Underfull \hbox (badness 1009) in paragraph at lines 84--93 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3180] Underfull \hbox (badness 1009) in paragraph at lines 174--183 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3181] [3182] [3183] [3184] [3185] Overfull \hbox (4.38043pt too wide) in paragraph at lines 454--454 [] \T1/pcr/m/n/9 lme(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres sure^4))*QB,[] [3186] [3187] Overfull \hbox (20.58041pt too wide) in paragraph at lines 595--595 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 251-254 --------------------------- ---------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 611--611 []\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 614--614 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 222-225 --------------------------- ---------------[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 621--621 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 352-365 --------------------------- ---------------[] [3188] [3189] [3190] [3191] [3192] [3193] [3194] [3195] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1085--1085 [] \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxil lary fissure"),[] [3196] Underfull \hbox (badness 5446) in paragraph at lines 1147--1149 []\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 [3197] [3198] [3199] [3200] [3201] [3202] [3203] Underfull \hbox (badness 10000) in paragraph at lines 1626--1629 [][][]\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 , [3204] Underfull \hbox (badness 3780) in paragraph at lines 1643--1645 []\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 [3205] [3206] [3207] [3208] [3209] Underfull \hbox (badness 2042) in paragraph at lines 1992--1998 \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 , [3210] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2054--2054 []\T1/pcr/m/n/9 collapse(Pixel, collapse = 1) # same as collapse(Pixel, colla pse = "Dog")[] [3211] Underfull \hbox (badness 1132) in paragraph at lines 2143--2145 []\T1/ptm/m/n/10 fitted model ob-jects, from which pre-dic-tions can be ex-trac ted us-ing the [3212] [3213] Underfull \hbox (badness 4168) in paragraph at lines 2254--2260 [][][]\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 , [3214] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2279--2279 [] \T1/pcr/m/n/9 gls(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres sure^4))*QB,[] [3215] [3216] [3217] [3218] [3219] [3220] [3221] [3222] Underfull \hbox (badness 10000) in paragraph at lines 2845--2849 [][][]\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 , [3223] [3224] [3225] [3226] [3227] [3228pdfTeX warning (ext4): destination with the same identifier (name{Rfn.corMatrix.corCompSymm}) has been already used, d uplicate ignored ...shipout:D \box_use:N \l_shipout_box l.3188 ...trix(cs1, covariate = 1:4, corr = FALSE) ] [3229] [3230] [3231] [3232] [3233] [3234] Underfull \hbox (badness 6493) in paragraph at lines 3580--3588 [][][]\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 , [3235] [3236] [3237] [3238] [3239] [3240] [3241] [3242] [3243] [3244] [3245] [3246] [3247] [3248] [3249] [3250] [3251] [3252] [3253] [3254] [3255] [3256] [3257] [3258] Underfull \hbox (badness 10000) in paragraph at lines 5160--5164 [][][]\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 , [3259] [3260] [3261] [3262] [3263] [3264] [3265] Underfull \hbox (badness 10000) in paragraph at lines 5592--5595 [][][]\T1/pcr/m/n/10 getGroupsFormula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n /10 getGroups.data.frame[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 getGroups .gls[][][][]\T1/ptm/m/n/10 , [3266] [3267] [3268] [3269] [3270] [3271] [3272] [3273] [3274] Underfull \hbox (badness 2799) in paragraph at lines 6098--6104 \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 [3275] Underfull \hbox (badness 7133) in paragraph at lines 6159--6163 []\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 , [3276] Underfull \hbox (badness 2057) in paragraph at lines 6248--6259 [][][]\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 , [3277] Underfull \hbox (badness 10000) in paragraph at lines 6312--6314 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3278] [3279] [3280] [3281] Underfull \hbox (badness 7133) in paragraph at lines 6560--6564 []\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 , [3282] Underfull \hbox (badness 10000) in paragraph at lines 6659--6665 [][][]\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 6686--6686 []\T1/pcr/m/n/10 gnlsControl(maxIter = 50, nlsMaxIter = 7, msMaxIter = 50, min Scale = 0.001, [3283] Underfull \hbox (badness 10000) in paragraph at lines 6724--6726 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3284] [3285] [3286] [3287] Underfull \hbox (badness 10000) in paragraph at lines 6995--7002 [][][]\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 , [3288] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7013--7013 [] \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxilla ry fissure" ),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7018--7018 []\T1/pcr/m/n/9 fm1 <- lme( Orth.new ) # fixed and groups formulae extracted from object[] Underfull \hbox (badness 2875) in paragraph at lines 7040--7042 []\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 [3289] [3290] [3291] Underfull \hbox (badness 10000) in paragraph at lines 7255--7260 [][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr /m/n/10 Initialize.lmeStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initi alize.glsStruct[][][][]\T1/ptm/m/n/10 , [3292] [3293] [3294] Underfull \hbox (badness 1997) in paragraph at lines 7406--7414 []\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 7406--7414 \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 7429--7432 [][][]\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 , [3295] [3296] [3297] Underfull \hbox (badness 3354) in paragraph at lines 7645--7647 []\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 [3298] [3299] [3300] [3301] [3302] [3303] [3304] [3305] Underfull \hbox (badness 10000) in paragraph at lines 8173--8190 [][][]\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 8173--8190 [][][]\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 , [3306] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8216--8216 [] \T1/pcr/m/n/10 subset, method, na.action, control, contrasts, keep.data = TRUE)[] Underfull \hbox (badness 1642) in paragraph at lines 8225--8247 []\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a one-sided for-mula o f the form [3307] [3308] [3309] [3310] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8490--8490 []\T1/pcr/m/n/10 lmeControl(maxIter = 50, msMaxIter = 50, tolerance = 1e-6, ni terEM = 25, [3311] Underfull \hbox (badness 10000) in paragraph at lines 8538--8540 []\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 8582--8582 []\T1/pcr/m/n/9 # request that information on the evolution of the ms iteratio ns be printed[] [3312] [3313] [3314] [3315] [3316] [3317] [3318] [3319] [3320] [3321] [3322] [3323] Underfull \hbox (badness 10000) in paragraph at lines 9345--9352 [][][]\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 9356--9356 []\T1/pcr/m/n/9 fm1 <- lme(distance ~ Sex * age, Orthodont, random = ~ age, me thod = "ML") [3324] [3325] [3326] [3327] [3328]pdfTeX warning (ext4): destination with the s ame identifier (name{Rfn.Matrix}) has been already used, duplicate ignored \relax l.9707 ...rA{Matrix}{Assign Matrix Values}{Matrix} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.Matrix.1}) has been already used, dupl icate ignored \relax l.9707 ...rA{Matrix}{Assign Matrix Values}{Matrix} [3329] Underfull \hbox (badness 10000) in paragraph at lines 9727--9730 []\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 9771--9774 []\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 9771--9774 \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 [3330] [3331] [3332] [3333] [3334] [3335] [3336] [3337] [3338] [3339] [3340] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10451--10451 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights, [3341] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10455--10455 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights,[] Underfull \hbox (badness 1596) in paragraph at lines 10484--10510 []\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a two-sided for-mula o f the form [3342] [3343] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10638--10638 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights,[] [3344] [3345] [3346] Overfull \hbox (36.78088pt too wide) in paragraph at lines 10789--10789 [] \T1/pcr/m/n/10 opt = c("nlminb", "nlm"), natural = TRUE, sigma = NULL, ...)[] Underfull \hbox (badness 2213) in paragraph at lines 10800--10805 []\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 10822--10826 []\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= [3347] Underfull \hbox (badness 10000) in paragraph at lines 10841--10843 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3348] [3349] [3350] [3351] Overfull \hbox (96.18033pt too wide) in paragraph at lines 11137--11137 []\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 11138--11138 []\T1/pcr/m/n/9 mat.class <- class(matrix(1)) # ("matrix", "array") for R >= 4 .0.0; ("matrix" in older R)[] [3352] [3353] [3354] [3355] [3356] [3357] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11528--11528 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo nt)), .. lme(*)) [3358] [3359] [3360] [3361] [3362] [3363] Underfull \hbox (badness 6268) in paragraph at lines 11915--11925 [][][]\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 , [3364] [3365] [3366] [3367] Underfull \hbox (badness 10000) in paragraph at lines 12176--12182 [][][]\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 , [3368] [3369] [3370] [3371] [3372] Underfull \hbox (badness 6876) in paragraph at lines 12498--12500 []\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 [3373] [3374] Underfull \hbox (badness 2452) in paragraph at lines 12654--12661 [][][]\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 , [3375] Underfull \hbox (badness 10000) in paragraph at lines 12720--12726 [][][]\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 , [3376] [3377] [3378] [3379] [3380] [3381] [3382] [3383] [3384] Overfull \hbox (25.98041pt too wide) in paragraph at lines 13309--13309 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo nt)), .. lme(*)) [3385] [3386] [3387] [3388] [3389] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13674--13674 []\T1/pcr/m/n/9 plot(fm1, resid(., type = "pool") ~ fitted(.) | Sex, abline = 0, id = 0.05)[] [3390] Underfull \hbox (badness 10000) in paragraph at lines 13701--13704 []\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 [3391] Underfull \hbox (badness 1838) in paragraph at lines 13744--13751 []\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 13744--13751 []\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 13801--13801 []\T1/pcr/m/n/10 plot(x, outer, inner, innerGroups, xlab, ylab, strip, aspect, panel,[] [3392] Underfull \hbox (badness 10000) in paragraph at lines 13808--13811 []\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 13808--13811 []\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 [3393] Underfull \hbox (badness 10000) in paragraph at lines 13916--13919 []\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 [3394] [3395] Underfull \hbox (badness 10000) in paragraph at lines 14010--14012 [][][]\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 , [3396] [3397] [3398] [3399] [3400] [3401] [3402] [3403] Overfull \hbox (20.58041pt too wide) in paragraph at lines 14534--14534 []\T1/pcr/m/n/9 newOrth <- data.frame(Sex = c("Male","Male","Female","Female", "Male","Male"),[] [3404] [3405] [3406] [3407] [3408] [3409] [3410] [3411] [3412]pdfTeX warning (e xt4): destination with the same identifier (name{Rfn.random.effects}) has been already used, duplicate ignored \relax l.15187 ...Extract Random Effects}{random.effects} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.random.effects.1}) has been already us ed, duplicate ignored \relax l.15187 ...Extract Random Effects}{random.effects} [3413] [3414] [3415] [3416] [3417] [3418] [3419] [3420] [3421] [3422] Underfull \hbox (badness 2126) in paragraph at lines 15826--15830 []\T1/ptm/m/n/10 Charles F. Minto, Thomas W. Schnider and Steven L. Shafer (199 7). Phar-ma-coki-net- [3423] Overfull \hbox (25.98041pt too wide) in paragraph at lines 15834--15834 []\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 Overfull \hbox (31.3804pt too wide) in paragraph at lines 15853--15853 [] \T1/pcr/m/n/9 stopifnot(all.equal(BSA, Wt^{0.425} * Ht^{0.725} * 0.00718 4, tol = 1.5e-5),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 15854--15854 [] \T1/pcr/m/n/9 all.equal(LBM, LBMfn(Wt, Ht, Sex), tol = 7e-7)[] [3424] Underfull \hbox (badness 1009) in paragraph at lines 15884--15893 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3425] [3426] Overfull \hbox (66.78088pt too wide) in paragraph at lines 16031--16031 [] \T1/pcr/m/n/10 type = c("response", "pearson", "normalized"), asLi st = FALSE, ...)[] [3427] [3428] [3429] [3430] [3431] Underfull \hbox (badness 10000) in paragraph at lines 16366--16372 [][][]\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 , [3432] Overfull \hbox (18.78088pt too wide) in paragraph at lines 16398--16398 [] \T1/pcr/m/n/10 method = c("REML", "ML"), niterEM = c(40, 200), useG en, ...)[] [3433] [3434] [3435] [3436] [3437] [3438] [3439] Underfull \hbox (badness 1728) in paragraph at lines 16885--16888 []\T1/ptm/m/n/10 an op-tional log-i-cal value used to con-trol the amount of ou t-put in the [3440] [3441] [3442] [3443] [3444] Underfull \hbox (badness 1803) in paragraph at lines 17219--17228 \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 17219--17228 \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 17219--17228 \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) [3445] Underfull \hbox (badness 10000) in paragraph at lines 17290--17291 []\T1/pcr/m/n/10 "Constant plus power of variance Underfull \hbox (badness 10000) in paragraph at lines 17291--17292 []\T1/pcr/m/n/10 "Constant plus proportion of variance [3446] [3447] [3448] [3449] Underfull \hbox (badness 10000) in paragraph at lines 17541--17549 [][][]\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 , [3450] [3451] [3452] [3453] Overfull \hbox (4.38043pt too wide) in paragraph at lines 17813--17813 []\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 17815--17815 []\T1/pcr/m/n/9 # overparameterisation in the case of a constant term in the v ariance function[] [3454] [3455] [3456] [3457] [3458] [3459] Underfull \hbox (badness 10000) in paragraph at lines 18251--18261 [][][]\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 18251--18261 [][][]\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 , [3460] Underfull \hbox (badness 3579) in paragraph at lines 18289--18294 \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 [3461] Underfull \hbox (badness 3579) in paragraph at lines 18353--18358 \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 [3462] Underfull \hbox (badness 3579) in paragraph at lines 18416--18421 \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 [3463] Underfull \hbox (badness 1577) in paragraph at lines 18477--18479 []\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 18479--18484 \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 [3464] Underfull \hbox (badness 3579) in paragraph at lines 18542--18547 \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 18575--18584 [][][]\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 18575--18584 [][][]\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 , [3465] Underfull \hbox (badness 3579) in paragraph at lines 18614--18619 \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 [3466] [3467] Underfull \hbox (badness 1009) in paragraph at lines 18760--18769 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3468] [3469] Underfull \hbox (badness 1009) in paragraph at lines 18892--18901 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3470] [3471] [3472] [3473] [3474] [3475] [3476] [3477] [3478]) (./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): destin ation with the same identifier (name{Rfn.multinom.1}) has been already used, du plicate ignored \relax l.47 ...t Multinomial Log-linear Models}{multinom} [3479] 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,[] [3480] [3481] [3482] Overfull \hbox (15.18042pt too wide) in paragraph at lines 371--371 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 2, rang = 0.1,[] [3483] Overfull \hbox (4.38043pt too wide) in paragraph at lines 428--428 []\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 431--431 []\T1/pcr/m/n/9 ir1 <- nnet(ir[samp,], targets[samp,], size=2, rang=0.1, decay =5e-4, maxit=200)[] [3484] [3485] Overfull \hbox (15.18042pt too wide) in paragraph at lines 511--511 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 2, rang = 0.1,[] [3486]) (./rpart-pkg.tex Chapter 27. [3487] [3488] [3489] [3490] 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, ...)[] [3491] [3492] [3493] [3494] 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 [3495] [3496] 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 [3497] [3498] [3499] 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"),[] [3500] [3501] [3502] [3503] 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 [3504] 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,[] [3505] [3506] [3507] [3508] [3509] [3510] [3511] 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 ', [3512] 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,[] [3513] [3514] [3515]) (./spatial-pkg.tex [3516] Chapter 28. [3517] [3518] [3519] [3520] [3521] [3522] Underfull \hbox (badness 10000) in paragraph at lines 423--427 [3523] [3524] [3525] [3526] [3527] [3528] [3529] [3530] [3531] [3532] [3533] [3534] [3535]) (./survival-pkg.tex [3536] Chapter 29. [3537] [3538] 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.[] [3539] [3540] 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 [3541] [3542]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): destin ation with the same identifier (name{Rfn.aml.1}) has been already used, duplica te ignored \relax l.384 ... Myelogenous Leukemia survival data}{aml} [3543] Overfull \hbox (9.78043pt too wide) in paragraph at lines 485--485 []\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 487--487 []\T1/pcr/m/n/9 fit2 <- coxph(Surv(futime, fustat) ~ resid.ds +rx + ecog.ps, d ata=ovarian)[] [3544] 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)[] [3545] [3546] [3547] [3548] Overfull \hbox (20.58041pt too wide) in paragraph at lines 773--773 []\T1/pcr/m/n/9 py <- pseudo(survfit(Surv(time, status) ~1, lung), time=730) # 2 year survival Overfull \hbox (48.78088pt too wide) in paragraph at lines 796--796 [] \T1/pcr/m/n/10 method =c("Prentice","SelfPrentice","LinYing","I.Borgan", "II.Borgan"),[] [3549] [3550] Overfull \hbox (9.78043pt too wide) in paragraph at lines 939--939 [] \T1/pcr/m/n/9 subcoh = ~subcohort, id=~seqno, stratum=~instit, cohort.siz e=stratsizes,[] [3551] [3552] [3553] Underfull \hbox (badness 1097) in paragraph at lines 1110--1112 []\T1/ptm/m/n/10 F.J. Anscombe (1949). Trans-for-ma-tions of Pois-son, bi-no-mi al and negative-binomial data. Overfull \hbox (4.38043pt too wide) in paragraph at lines 1130--1130 []\T1/pcr/m/n/9 ppois(4, 10.24153) #chance of seeing 4 or fewer events wit h large rate[] [3554] [3555] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1245--1245 []\T1/pcr/m/n/9 ## Not run: clogit(case ~ spontaneous + induced + strata(strat um), data=infert) [3556] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1306--1306 []\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.1312 ...erapy for Stage B/C colon cancer}{colon} [3557] Overfull \hbox (72.78088pt too wide) in paragraph at lines 1412--1412 [] \T1/pcr/m/n/10 influence=0, ranks = FALSE, reverse=FALSE, timefix=TRUE, ke epstrata=10, ...)[] [3558] [3559] [3560] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1638--1638 []\T1/pcr/m/n/9 options(na.action = na.exclude) # predict all 1384 obs, incl uding missing[] [3561] [3562] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1732--1732 []\T1/pcr/m/n/10 cox.zph(fit, transform="km", terms=TRUE, singledf=FALSE, glob al=TRUE) [3563] [3564] [3565] [3566] Underfull \hbox (badness 10000) in paragraph at lines 2048--2063 []\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 2048--2063 \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 2048--2063 \T1/ptm/m/n/10 cial terms, e.g., []\T1/pcr/m/n/10 survival::coxph(survival:Surv (time, status) ~ age + [3567] Underfull \hbox (badness 3861) in paragraph at lines 2143--2147 [][][]\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 , [3568] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2198--2198 []\T1/pcr/m/n/10 iter.max = 20, toler.inf = sqrt(eps), outer.max = 10, timefix =TRUE)[] [3569] [3570] [3571] [3572] [3573] [3574] [3575] [3576] [3577] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2825--2825 [] \T1/pcr/m/n/9 [1] "extreme" "logistic" "gaussian" "weibull" " exponential"[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2866--2866 []\T1/pcr/m/n/10 finegray(formula, data, weights, subset, na.action= na.pass, etype, [3578] [3579] [3580] [3581] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3110--3110 []\T1/pcr/m/n/10 frailty.t(x, sparse = (nclass > 5), theta, df, eps = 1e-05, t df = 5,[] [3582] [3583] [3584] [3585] [3586] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3451--3451 []\T1/pcr/m/n/9 kfit <- coxph(Surv(time, status)~ age + sex + disease + frailt y(id), kidney) [3587] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3486--3486 [] \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 3500--3502 []\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 Overfull \hbox (12.78088pt too wide) in paragraph at lines 3511--3511 [] \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "ar csin"),[] [3588] [3589] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3645--3645 [] \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 )))[] [3590] [3591] Overfull \hbox (467.89665pt too wide) in alignment at lines 3786--3786 [] [] [3592] [3593] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3908--3908 []\T1/pcr/m/n/9 # surprise) but their rates of conversion to PCM are essential ly the same.[] [3594] [3595] [3596] [3597] [3598] [3599] [3600] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4344--4344 [] \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 )))[] [3601] [3602] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4494--4494 []\T1/pcr/m/n/9 tdata <- data.frame(x= lung$age, y = 10*log(lung$age-35) + rno rm(228, 0, 2))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4499--4499 []\T1/pcr/m/n/9 knots <- unlist(attributes(fit1$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 4503--4503 []\T1/pcr/m/n/9 unname(coef(fit1)[-1] - coef(fit1)[1]) # differences: yhat[2: 4] - yhat[1][] [3603] Underfull \vbox (badness 1527) has occurred while \output is active [3604] [3605] [3606] [3607] [3608] [3609] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4920--4920 [] \T1/pcr/m/n/10 pch=3, col=1, lty=1, lwd=1, cex=1, log=FALSE, xscale=1, ysca le=1,[] [3610] [3611] [3612] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5150--5150 []\T1/pcr/m/n/10 se.fit=FALSE, na.action=na.pass, terms=names(object$assign), collapse,[] [3613] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5276--5276 []\T1/pcr/m/n/9 mresid <- (lung$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[] [3614] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5284--5284 [] \T1/pcr/m/n/9 predict(fit, reference="sample") + sum(coef(fit) * fit$means , na.rm=TRUE)[] [3615] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5370--5370 []\T1/pcr/m/n/9 pct <- 1:98/100 # The 100th percentile of predicted survival is at +infinity[] [3616] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5448--5448 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), expand=FALSE , ...)[] [3617] Underfull \hbox (badness 1852) in paragraph at lines 5520--5522 []\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 [3618] [3619] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5646--5646 []\T1/pcr/m/n/10 pseudo(fit, times, type, addNA=TRUE, data.frame=FALSE, minus1 =FALSE, ...) [3620] [3621] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5757--5757 []\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 5769--5769 []\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 5771--5771 []\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 5795--5795 []\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 5796--5796 [] \T1/pcr/m/n/10 Boundary.knots=range(x), intercept=FALSE, penalty=TRUE, co mbine, ...)[] [3622] [3623] [3624] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5959--5959 [] \T1/pcr/m/n/10 py <- pyears(futime ~ rx, rmap=list(age=age, sex=sex, year= entry.dt),[] [3625] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6061--6061 []\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 6082--6082 []\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 6084--6084 []\T1/pcr/m/n/9 fit2 <- pyears(Surv(stop/365.25, event) ~ tcut(age + 48, c(0,5 0,60,70,100)) +[] [3626] [3627] [3628] [3629] Underfull \vbox (badness 3168) has occurred while \output is active [3630] [3631] [3632] Overfull \hbox (42.78088pt too wide) in paragraph at lines 6550--6550 [] \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfbe tas")), ...)[] [3633] [3634] [3635] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6731--6731 []\T1/pcr/m/n/10 residuals(object, type=c("response", "deviance","dfbeta","dfb etas",[] Underfull \hbox (badness 1043) in paragraph at lines 6743--6746 []\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 [3636] [3637] [3638] [3639] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7050--7050 []\T1/pcr/m/n/9 lfit1 <- survreg(Surv(time, status) ~ age + ridge(ph.ecog, the ta=5), lung)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7051--7051 []\T1/pcr/m/n/9 lfit2 <- survreg(Surv(time, status) ~ sex + ridge(age, ph.ecog , theta=1), lung)[] [3640] [3641] [3642] Overfull \hbox (72.78088pt too wide) in paragraph at lines 7223--7223 []\T1/pcr/m/n/10 rttright(formula, data, weights, subset, na.action, times, id , timefix = TRUE) [3643] Overfull \hbox (42.18039pt too wide) in paragraph at lines 7304--7304 []\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 7308--7308 []\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.7312 ...ata from a soldering experiment}{solder} [3644] Overfull \vbox (33.26576pt too high) has occurred while \output is active [3645] Overfull \hbox (24.78088pt too wide) in paragraph at lines 7418--7418 []\T1/pcr/m/n/10 statefig(layout, connect, margin = 0.03, box = TRUE, cex = 1, col = 1, [3646] [3647] [3648] [3649] [3650] Overfull \hbox (42.78088pt too wide) in paragraph at lines 7782--7782 []\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 7783--7783 []\T1/pcr/m/n/10 ci.r = FALSE, ci.rr = FALSE, totals=FALSE, legend = TRUE, vli ne = FALSE,[] [3651] [3652] [3653] [3654] [3655] Overfull \hbox (54.78088pt too wide) in paragraph at lines 8100--8100 [] \T1/pcr/m/n/10 type=c(\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 right\TS1/pcr/m/n/ 10 '\T1/pcr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 left\TS1/pcr/m/n/10 '\T1/p cr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 interval\TS1/pcr/m/n/10 '\T1/pcr/m/ n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 counting\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 interval2\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 , \T S1/pcr/m/n/10 '\T1/pcr/m/n/10 mstate\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ),[] [3656] [3657] [3658] Underfull \hbox (badness 1253) in paragraph at lines 8389--8392 []\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 [3659] [3660] Overfull \hbox (30.78088pt too wide) in paragraph at lines 8519--8519 []\T1/pcr/m/n/10 survcheck(formula, data, subset, na.action, id, istate, istat e0="(s0)", [3661] [3662] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8633--8633 []\T1/pcr/m/n/10 survcondense(formula, data, subset, weights, na.action= na.pa ss, id, [3663] [3664] [3665] Overfull \hbox (36.7804pt too wide) in paragraph at lines 8832--8832 [] \T1/pcr/m/n/9 rmap= list(age=(accept.dt - birth.dt), sex=1 , year=accept.dt),[] [3666] Overfull \hbox (24.78088pt too wide) in paragraph at lines 8857--8857 [] \T1/pcr/m/n/10 method=c("ederer", "hakulinen", "conditional", "indiv idual.h",[] Underfull \hbox (badness 1038) in paragraph at lines 8899--8905 []\T1/ptm/m/n/10 op-tion does not cre-ate a curve, rather it re-trieves the pre -dicted sur-vival [3667] Overfull \hbox (48.78088pt too wide) in paragraph at lines 8951--8951 [] \T1/pcr/m/n/10 rmap = list(year=entry.dt, age=(birth.d t-entry.dt)),[] [3668] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9037--9037 []\T1/pcr/m/n/9 summary(fit1, times=1:10*182.5, scale=365) #expected survival by 1/2 years[] [3669] [3670] [3671] Underfull \hbox (badness 10000) in paragraph at lines 9257--9262 [][][]\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 , Overfull \hbox (12.78088pt too wide) in paragraph at lines 9277--9277 [] \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 9278--9278 [] \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", "arcsin"),[] [3672] Overfull \hbox (18.78088pt too wide) in paragraph at lines 9283--9283 [] \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 9284--9284 [] \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", "arcsin"),[] [3673] [3674] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9507--9507 [] \T1/pcr/m/n/10 stype=1, ctype=1, id, cluster, robust, istate, timefi x=TRUE,[] [3675] [3676] Underfull \hbox (badness 2653) in paragraph at lines 9641--9646 \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, [3677] [3678] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9781--9781 []\T1/pcr/m/n/9 # There are no interval censored subjects, only left-censored (status=3),[] [3679] [3680] [3681] [3682] [3683] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10168--10168 []\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 10209--10213 []\T1/ptm/m/n/10 survival times, for time de-pen-dent pre-dic-tion. It gives th e time range [3684] Overfull \hbox (60.78088pt too wide) in paragraph at lines 10255--10255 []\T1/pcr/m/n/10 survConcordance(formula, data, weights, subset, na.action) # use concordance [3685] [3686] Underfull \hbox (badness 2035) in paragraph at lines 10419--10426 \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 10419--10426 \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 10419--10426 []\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 [3687] [3688] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10509--10509 []\T1/pcr/m/n/9 # There are multiple ways to parameterize a Weibull distributi on. The survreg[] [3689] [3690] Overfull \hbox (31.3804pt too wide) in paragraph at lines 10666--10666 [] \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 )[] [3691] [3692] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10798--10798 [] \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 10801--10801 [] \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 )[] [3693] [3694] [3695] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10961--10961 []\T1/pcr/m/n/9 pfit2 <- pyears(Surv(years, death) ~ fgrp + agegrp, scale =100 0, data=test)[] [3696] [3697] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11119--11119 []\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 11120--11120 []\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 11126--11126 [] \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 11128--11128 []\T1/pcr/m/n/9 fit <- coxph(Surv(tstart, tstop, endpt==2) ~ protime + log(bil i), data=pbc2)[] [3698] [3699] [3700] [3701] [3702] [3703] [3704] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11569--11569 []\T1/pcr/m/n/10 levels, test = c("global", "trend", "pairwise"), predict = "l inear",[] [3705] [3706] [3707]) [3708] (./fullrefman.ind [3709] [3710] [3711] [3712] [3713] [3714] [3715] [3716] [3717] [3718] [3719] [3720] [3721] [3722] [3723] [3724] [3725] [3726] [3727] [3728] [3729] [3730] [3731] [3732] [3733] Overfull \hbox (19.3567pt too wide) in paragraph at lines 2611--2613 []| \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 2613--2615 []| \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 2615--2617 []| \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 2617--2619 []| \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 2619--2621 []| \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 2621--2623 []| \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 2623--2625 []| \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 2625--2627 []| \T1/pcr/m/n/10 smooth.construct.ps.smooth.spec\T1/ptm/m/n/10 , 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Overfull \hbox (19.3567pt too wide) in paragraph at lines 3253--3255 []| \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 3255--3257 []| \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 3257--3259 []| \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 3259--3261 []| \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 3261--3263 []| \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 3263--3265 []| \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 3265--3267 []| \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 3267--3269 []| \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 3269--3271 []| \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 3271--3273 []| \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 3273--3275 []| \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 3275--3277 []| \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 3277--3279 []| \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 3279--3281 []| \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 3281--3283 []| \T1/pcr/m/n/10 smooth.construct.tp.smooth.spec\T1/ptm/m/n/10 , [3740] [3741] Overfull \hbox (19.3567pt too wide) in paragraph at lines 3437--3439 []| \T1/pcr/m/n/10 smooth.construct.so.smooth.spec\T1/ptm/m/n/10 , [3742] [3743] [3744] [3745] [3746] [3747] [3748] [3749] Overfull \hbox (62.8567pt too wide) in paragraph at lines 4588--4590 []\T1/pcr/m/n/10 [,CsparseMatrix,index,index,logical-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 4590--4592 []\T1/pcr/m/n/10 [,CsparseMatrix,index,missing,logical-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 4592--4594 []\T1/pcr/m/n/10 [,CsparseMatrix,missing,index,logical-method [3750] Overfull \hbox (20.8567pt too wide) in paragraph at lines 4596--4598 []\T1/pcr/m/n/10 [,Matrix,index,index,missing-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 4598--4600 []\T1/pcr/m/n/10 [,Matrix,index,missing,missing-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 4600--4602 []\T1/pcr/m/n/10 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wide) in paragraph at lines 4816--4818 []\T1/pcr/m/n/10 [<-,Matrix,lsparseMatrix,missing,replValue-method Overfull \hbox (62.8567pt too wide) in paragraph at lines 4818--4820 []\T1/pcr/m/n/10 [<-,Matrix,matrix,missing,replValue-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 4820--4822 []\T1/pcr/m/n/10 [<-,Matrix,missing,ANY,Matrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 4822--4824 []\T1/pcr/m/n/10 [<-,Matrix,missing,ANY,matrix-method Overfull \hbox (98.8567pt too wide) in paragraph at lines 4824--4826 []\T1/pcr/m/n/10 [<-,Matrix,ndenseMatrix,missing,replValue-method Overfull \hbox (104.8567pt too wide) in paragraph at lines 4826--4828 []\T1/pcr/m/n/10 [<-,Matrix,nsparseMatrix,missing,replValue-method Overfull \hbox (86.8567pt too wide) in paragraph at lines 4828--4830 []\T1/pcr/m/n/10 [<-,RsparseMatrix,index,index,replValue-method Overfull \hbox (104.8567pt too wide) in paragraph at lines 4830--4832 []\T1/pcr/m/n/10 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\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 , [3798] [3799] Overfull \hbox (20.8567pt too wide) in paragraph at lines 13135--13137 []\T1/pcr/m/n/10 groupGenericFunctionWithTrace-class [3800] [3801] [3802] [3803] Overfull \hbox (2.8567pt too wide) in paragraph at lines 13945--13947 []\T1/pcr/m/n/10 is.infinite,dsparseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 13961--13963 []\T1/pcr/m/n/10 is.infinite,nsparseVector-method [3804] [3805] Overfull \hbox (2.8567pt too wide) in paragraph at lines 14186--14188 []\T1/pcr/m/n/10 isDiagonal,diagonalMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 14198--14200 []\T1/pcr/m/n/10 isDiagonal,unpackedMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 14267--14269 []\T1/pcr/m/n/10 isSymmetric,diagonalMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 14297--14299 []\T1/pcr/m/n/10 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[]\T1/pcr/m/n/10 Logic,sparseVector,dMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15378--15380 []\T1/pcr/m/n/10 Logic,sparseVector,lMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15380--15382 []\T1/pcr/m/n/10 Logic,sparseVector,nMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 15382--15384 []\T1/pcr/m/n/10 Logic,sparseVector,sparseVector-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 15384--15386 []\T1/pcr/m/n/10 Logic,triangularMatrix,diagonalMatrix-method [3812] [3813] [3814] [3815] [3816] Overfull \hbox (52.01662pt too wide) in paragraph at lines 16457--16459 \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 , [3817] [3818] Overfull \hbox (8.8567pt too wide) in paragraph at lines 17059--17061 []\T1/pcr/m/n/10 nonstandardGenericWithTrace-class Overfull \hbox (8.8567pt too wide) in paragraph at lines 17078--17080 []\T1/pcr/m/n/10 norm,denseMatrix,character-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17082--17084 []\T1/pcr/m/n/10 norm,diagonalMatrix,character-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 17092--17094 []\T1/pcr/m/n/10 norm,sparseMatrix,character-method [3819] [3820] Overfull \hbox (26.8567pt too wide) in paragraph at lines 17368--17370 []\T1/pcr/m/n/10 Ops,atomicVector,sparseVector-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 17384--17386 []\T1/pcr/m/n/10 Ops,ddiMatrix,sparseMatrix-method Overfull \hbox (62.8567pt too wide) in paragraph at lines 17386--17388 []\T1/pcr/m/n/10 Ops,diagonalMatrix,triangularMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17406--17408 []\T1/pcr/m/n/10 Ops,dsparseMatrix,nsparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17408--17410 []\T1/pcr/m/n/10 Ops,ldenseMatrix,ldenseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 17424--17426 []\T1/pcr/m/n/10 Ops,ldiMatrix,sparseMatrix-method [3821] Overfull \hbox (38.8567pt too wide) in paragraph at lines 17438--17440 []\T1/pcr/m/n/10 Ops,lsparseMatrix,lsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17440--17442 []\T1/pcr/m/n/10 Ops,lsparseMatrix,nsparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17456--17458 []\T1/pcr/m/n/10 Ops,ndenseMatrix,ndenseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17466--17468 []\T1/pcr/m/n/10 Ops,nonStructure,nonStructure-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17470--17472 []\T1/pcr/m/n/10 Ops,nsparseMatrix,dsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17472--17474 []\T1/pcr/m/n/10 Ops,nsparseMatrix,lsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 17474--17476 []\T1/pcr/m/n/10 Ops,nsparseMatrix,sparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 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package_native_routine_registration_skeleton\T1/ptm/m/n/10 , [3823] [3824] [3825] [3826] [3827] [3828] Overfull \hbox (46.01662pt too wide) in paragraph at lines 19075--19077 \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 19078--19080 \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 19080--19082 \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 19082--19084 \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 19084--19086 \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 19086--19088 \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 19088--19090 \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 19090--19092 \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 19092--19094 \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 19094--19096 \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 (52.01662pt too wide) in paragraph at lines 19098--19100 \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 (4.01662pt too wide) in paragraph at lines 19100--19102 \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 (46.01662pt too wide) in paragraph at lines 19102--19104 \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 19104--19106 \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 19106--19108 \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 19108--19110 \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 19110--19112 \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 , [3829] [3830] Overfull \hbox (4.01662pt too wide) in paragraph at lines 19463--19465 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 getDLLRegisteredRoutines\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , [3831] Overfull \hbox (4.01662pt too wide) in paragraph at lines 19539--19541 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 getDLLRegisteredRoutines\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , [3832] [3833] Overfull \hbox (26.8567pt too wide) in paragraph at lines 20012--20014 []\T1/pcr/m/n/10 qr.coef,sparseQR,ddenseMatrix-method [3834] Overfull \hbox (38.8567pt too wide) in paragraph at lines 20021--20023 []\T1/pcr/m/n/10 qr.fitted,sparseQR,ddenseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20023--20025 []\T1/pcr/m/n/10 qr.fitted,sparseQR,Matrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20025--20027 []\T1/pcr/m/n/10 qr.fitted,sparseQR,matrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 20027--20029 []\T1/pcr/m/n/10 qr.fitted,sparseQR,numeric-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 20039--20041 []\T1/pcr/m/n/10 qr.qty,sparseQR,ddenseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 20049--20051 []\T1/pcr/m/n/10 qr.qy,sparseQR,ddenseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 20064--20066 []\T1/pcr/m/n/10 qr.resid,sparseQR,ddenseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20070--20072 []\T1/pcr/m/n/10 qr.resid,sparseQR,numeric-method [3835] Overfull \hbox (62.8567pt too wide) in paragraph at lines 20195--20197 []\T1/pcr/m/n/10 R_AVAILABLE_PACKAGES_CACHE_CONTROL_MAX_AGE [3836] Overfull \hbox (26.8567pt too wide) in paragraph at lines 20423--20425 []\T1/pcr/m/n/10 rbind2,atomicVector,ddiMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 20425--20427 []\T1/pcr/m/n/10 rbind2,atomicVector,ldiMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 20427--20429 []\T1/pcr/m/n/10 rbind2,atomicVector,Matrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 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20510--20512 []\T1/pcr/m/n/10 rcond,denseMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20512--20514 []\T1/pcr/m/n/10 rcond,dgeMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20514--20516 []\T1/pcr/m/n/10 rcond,dpoMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20516--20518 []\T1/pcr/m/n/10 rcond,dppMatrix,character-method [3837] Overfull \hbox (2.8567pt too wide) in paragraph at lines 20518--20520 []\T1/pcr/m/n/10 rcond,dspMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20520--20522 []\T1/pcr/m/n/10 rcond,dsyMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20522--20524 []\T1/pcr/m/n/10 rcond,dtpMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20524--20526 []\T1/pcr/m/n/10 rcond,dtrMatrix,character-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 20526--20528 []\T1/pcr/m/n/10 rcond,sparseMatrix,character-method [3838] [3839] [3840] [3841] Overfull \hbox (20.8567pt too wide) in paragraph at lines 21497--21499 []\T1/pcr/m/n/10 Schur,diagonalMatrix,logical-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 21501--21503 []\T1/pcr/m/n/10 Schur,generalMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 21509--21511 []\T1/pcr/m/n/10 Schur,symmetricMatrix,logical-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 21511--21513 []\T1/pcr/m/n/10 Schur,triangularMatrix,logical-method [3842] [3843] Overfull \hbox (26.8567pt too wide) in paragraph at lines 21898--21900 []\T1/pcr/m/n/10 show,genericFunctionWithTrace-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 21900--21902 \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 21904--21906 []\T1/pcr/m/n/10 show,MethodDefinitionWithTrace-method Overfull 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(\T1/pcr/m/sl/10 smooth.construct.so.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (5.3567pt too wide) in paragraph at lines 22195--22196 []\T1/pcr/m/n/10 smooth.construct.sos.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 22196--22198 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.so.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (23.3567pt too wide) in paragraph at lines 22203--22207 []\T1/pcr/m/n/10 smooth.construct.tensor.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 22208--22210 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.tp.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 22259--22261 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.so.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , [3846] Overfull \hbox (14.8567pt too wide) in paragraph at lines 22295--22297 []\T1/pcr/m/n/10 solve,CHMfactor,denseMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 22303--22305 []\T1/pcr/m/n/10 solve,CHMfactor,sparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 22319--22321 []\T1/pcr/m/n/10 solve,dgCMatrix,denseMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 22327--22329 []\T1/pcr/m/n/10 solve,dgCMatrix,sparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 22355--22357 []\T1/pcr/m/n/10 solve,dsCMatrix,denseMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 22363--22365 []\T1/pcr/m/n/10 solve,dsCMatrix,sparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 22381--22383 []\T1/pcr/m/n/10 solve,dtCMatrix,denseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 22383--22385 []\T1/pcr/m/n/10 solve,dtCMatrix,dgCMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 22385--22387 []\T1/pcr/m/n/10 solve,dtCMatrix,dgeMatrix-method Overfull \hbox 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paragraph at lines 22429--22431 []\T1/pcr/m/n/10 solve,matrix,sparseVector-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 22431--22433 []\T1/pcr/m/n/10 solve,MatrixFactorization,ANY-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 22433--22435 []\T1/pcr/m/n/10 solve,MatrixFactorization,missing-method Overfull \hbox (80.8567pt too wide) in paragraph at lines 22435--22437 []\T1/pcr/m/n/10 solve,MatrixFactorization,sparseVector-method [3848] Overfull \hbox (52.01662pt too wide) in paragraph at lines 22599--22601 \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 , [3849] [3850] Overfull \hbox (44.8567pt too wide) in paragraph at lines 23054--23056 []\T1/pcr/m/n/10 summarize_check_packages_in_dir_depends Overfull \hbox (44.8567pt too wide) in paragraph at lines 23056--23058 []\T1/pcr/m/n/10 summarize_check_packages_in_dir_results Overfull \hbox (44.8567pt too wide) in paragraph at lines 23058--23060 []\T1/pcr/m/n/10 summarize_check_packages_in_dir_timings [3851] [3852] [3853] [3854] Overfull \hbox (20.8567pt too wide) in paragraph at lines 23897--23899 []\T1/pcr/m/n/10 tcrossprod,ANY,RsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 23899--23901 []\T1/pcr/m/n/10 tcrossprod,ANY,symmetricMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 23901--23903 []\T1/pcr/m/n/10 tcrossprod,ANY,TsparseMatrix-method Overfull \hbox (80.8567pt too wide) in paragraph at lines 23903--23905 []\T1/pcr/m/n/10 tcrossprod,CsparseMatrix,CsparseMatrix-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 23905--23907 []\T1/pcr/m/n/10 tcrossprod,CsparseMatrix,ddenseMatrix-method Overfull \hbox (86.8567pt too wide) in paragraph at lines 23907--23909 []\T1/pcr/m/n/10 tcrossprod,CsparseMatrix,diagonalMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 23909--23911 []\T1/pcr/m/n/10 tcrossprod,CsparseMatrix,matrix-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 23911--23913 []\T1/pcr/m/n/10 tcrossprod,CsparseMatrix,missing-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 23913--23915 []\T1/pcr/m/n/10 tcrossprod,CsparseMatrix,numLike-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 23915--23917 []\T1/pcr/m/n/10 tcrossprod,ddenseMatrix,CsparseMatrix-method Overfull \hbox (68.8567pt too wide) in paragraph at lines 23917--23919 []\T1/pcr/m/n/10 tcrossprod,ddenseMatrix,ddenseMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 23919--23921 []\T1/pcr/m/n/10 tcrossprod,ddenseMatrix,dsCMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 23921--23923 []\T1/pcr/m/n/10 tcrossprod,ddenseMatrix,dtrMatrix-method Overfull \hbox (68.8567pt too wide) in paragraph at lines 23923--23925 []\T1/pcr/m/n/10 tcrossprod,ddenseMatrix,ldenseMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 23925--23927 []\T1/pcr/m/n/10 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[3] [4] Underfull \hbox (badness 6741) in paragraph at lines 137--143 []\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 137--143 \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 137--143 \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 143--151 []\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 143--151 \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 143--151 []\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 143--151 \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 215--220 []\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 215--220 []\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 3009) in paragraph at lines 231--243 []\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] [7] Underfull \hbox (badness 10000) in paragraph at lines 374--378 [][][]\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 571--577 []\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 639--639 []\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 640--640 []\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) [14] [15] Overfull \hbox (4.38043pt too wide) in paragraph at lines 920--920 []\T1/pcr/m/n/9 all.equal(tan(d45), one, tolerance = 0, scale = 1+(-2:2)/1e9) # "absolute"[] [16] Overfull \hbox (4.38043pt too wide) in paragraph at lines 941--941 []\T1/pcr/m/n/9 mtext(paste("mean(all.equal(x1, x2*(1 + eps_k))) {100 x} Mean rel.diff.=",[] [17] Overfull \hbox (0.78088pt too wide) in paragraph at lines 990--990 []\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] Underfull \hbox (badness 1221) in paragraph at lines 1523--1529 []\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 1611--1617 Underfull \hbox (badness 10000) in paragraph at lines 1624--1626 []\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . orac le . 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 1966--1966 [] \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 1998--2001 []\T1/ptm/m/n/10 logical or in-te-ger; in-di-cat-ing if col-umn names with more than 256 (or [32] Underfull \hbox (badness 1325) in paragraph at lines 2027--2031 []\T1/ptm/m/n/10 Direct calls to []\T1/pcr/m/n/10 as.data.frame.() []\T1 /ptm/m/n/10 are still pos-si-ble (base pack-age!), for 12 Underfull \hbox (badness 3568) in paragraph at lines 2027--2031 \T1/ptm/m/n/10 atomic base classes, but will dep-re-cated (al-ready vis-i-bly b y set-ting en-vi-ron-ment vari- Underfull \hbox (badness 4144) in paragraph at lines 2027--2031 \T1/ptm/m/n/10 able []\T1/pcr/m/n/10 _R_CHECK_AS_DATA_FRAME_EXPLICIT_METHOD_ [] \T1/ptm/m/n/10 to non-empty) where call-ing [33] [34] [35] Overfull \hbox (112.38031pt too wide) in paragraph at lines 2267--2267 []\T1/pcr/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [36] Underfull \hbox (badness 10000) in paragraph at lines 2305--2307 []\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 2579--2579 []\T1/pcr/m/n/9 (now <- as.POSIXlt(Sys.time())) # the current datetime, as cla ss "POSIXlt"[] [41] [42] [43] Underfull \hbox (badness 1107) in paragraph at lines 2783--2785 []\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] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2950--2950 []\T1/pcr/m/n/10 attach(what, pos = 2L, name = deparse1(substitute(what), back tick=FALSE), [46] [47] [48] [49] [50] [51] [52] Underfull \hbox (badness 10000) in paragraph at lines 3413--3416 []\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 3718--3718 []\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 3749--3749 []\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 3750--3750 [] \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 3757--3757 []\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 3758--3758 [] \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 3761--3761 []\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 4209--4211 []\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] Underfull \hbox (badness 4927) in paragraph at lines 4714--4718 []\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 4714--4718 \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 [72] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4798--4798 [] \T1/pcr/m/n/10 Xchk = any(nas %in% c("X11", "jpeg", "png", "tif f")))[] [73] Underfull \hbox (badness 4595) in paragraph at lines 4872--4875 []\T1/ptm/m/n/10 is ICU avail-able for col-la-tion? See the help on [][]Com-par -i-son[][][] and [74] [75] [76] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5035--5035 []\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 5064--5070 []\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 5076--5079 []\T1/ptm/m/n/10 (only for data frame method:) log-i-cal in-di-cat-ing if uniqu e and valid [77] [78] [79] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5249--5249 []\T1/pcr/m/n/9 rbind(1:4, c = 2, "a++" = 10, dd, deparse.level = 1) # 3 rowna mes (default)[] [80] [81] [82] Underfull \hbox (badness 2521) in paragraph at lines 5505--5507 []\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 [83] [84] [85] [86] [87] [88] [89] [90] Underfull \hbox (badness 1270) in paragraph at lines 5997--6005 []\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", [91] [92] [93] [94] [95] [96] [97] [98] Underfull \hbox (badness 1796) in paragraph at lines 6571--6579 []\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 : / / [99] [100] [101] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6768--6768 []\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 6770--6770 []\T1/pcr/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6771--6771 []\T1/pcr/m/n/9 showC(NpNA)# but not always is {shows \TS1/pcr/m/n/9 '\T1/pcr /m/n/9 (R = NaN, I = NA)\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 on some platforms}[] [102] [103] Underfull \hbox (badness 1635) in paragraph at lines 6973--6976 []\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 6977--6980 []\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 [104] Underfull \hbox (badness 1308) in paragraph at lines 7020--7028 []\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 [105] [106] Overfull \hbox (30.78088pt too wide) in paragraph at lines 7184--7184 []\T1/pcr/m/n/10 unz(description, filename, open = "", encoding = getOption("e ncoding"))[] [107] Underfull \hbox (badness 4505) in paragraph at lines 7236--7239 []\T1/ptm/m/n/10 character string, par-tially matched to []\T1/pcr/m/n/10 c("de fault", "internal", [108] [109] Underfull \hbox (badness 1997) in paragraph at lines 7373--7378 []\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 unz[]\T1/ptm/m /n/10 , []\T1/pcr/m/n/10 socketConnection[]\T1/ptm/m/n/10 , [110] [111] [112] Underfull \hbox (badness 10000) in paragraph at lines 7621--7623 []\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 7663--7670 []\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 Underfull \hbox (badness 6592) in paragraph at lines 7663--7670 \T1/ptm/m/n/10 reads the X11 pri-mary se-lec-tion (see [][]$\T1/pcr/m/n/10 http s : / / specifications . freedesktop . Underfull \hbox (badness 1735) in paragraph at lines 7663--7670 []\T1/pcr/m/n/10 "X11_primary" []\T1/ptm/m/n/10 and the sec-ondary se-lec-tion as []\T1/pcr/m/n/10 "X11_secondary"[]\T1/ptm/m/n/10 . On most sys- [113] [114] [115] Underfull \vbox (badness 10000) has occurred while \output is active [116] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7878--7878 []\T1/pcr/m/n/9 A <- read.table(con <- file("students", encoding = "UCS-2LE")) ; close(con)[] [117] [118] [119] [120] Underfull \hbox (badness 10000) in paragraph at lines 8211--8213 []\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th e call to [121] [122] [123] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8369--8369 []\T1/pcr/m/n/9 curlGetHeaders("http://bugs.r-project.org") ## this redirect s to https://[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8371--8371 []\T1/pcr/m/n/9 ## curlGetHeaders("ftp://cran.r-project.org") ## ftp::// suppo rt is vanishing[] [124] [125] [126] [127] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8602--8602 []\T1/pcr/m/n/9 tm <- seq(as.POSIXct("2012-06-01 06:00"), by = "6 hours", leng th.out = 24)[] [128] Underfull \hbox (badness 10000) in paragraph at lines 8718--8728 []\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 8718--8728 [][][]\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 [129] [130] [131] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8886--8886 [] \T1/pcr/m/n/9 c = seq(as.Date("2004-01-01"), by = "week", l ength.out = 3),[] [132] [133] [134] [135] Underfull \hbox (badness 10000) in paragraph at lines 9214--9226 \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 [136] [137] [138] [139] [140] [141] [142] Underfull \hbox (badness 10000) in paragraph at lines 9758--9762 []\T1/pcr/m/n/10 .Defunct []\T1/ptm/m/n/10 is called from de-funct func-tions. Func-tions should be listed in [143] [144] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9849--9849 []\T1/pcr/m/n/9 ### Promises in an environment [for advanced users]: -------- -------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9851--9851 []\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 9879--9879 [] \T1/pcr/m/n/10 backtick = mode(expr) %in% c("call", "expression", "( ", "function"),[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 9880--9880 [] \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "sh owAttributes"),[] [145] [146] Underfull \hbox (badness 5403) in paragraph at lines 10011--10013 []\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 10030--10032 []\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 [147] [148] [149] Underfull \hbox (badness 1603) in paragraph at lines 10261--10264 []\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 [150] [151] [152] [153] [154] [155] [156] Overfull \hbox (12.78088pt too wide) in paragraph at lines 10726--10726 [] \T1/pcr/m/n/10 z <- as.POSIXct(c("2016-12-31 23:59:59", "2017-01-01 00:0 0:01"))[] [157] [158] Underfull \hbox (badness 1917) in paragraph at lines 10890--10895 []\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 [159] Overfull \hbox (36.7804pt too wide) in paragraph at lines 10945--10945 []\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 10946--10946 []\T1/pcr/m/n/9 strd(provideDimnames(A, base= list(c("AA","BB")))) # recycling on both levels[] [160] [161] Underfull \hbox (badness 1168) in paragraph at lines 11048--11053 []\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 [162] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11150--11150 []\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 11152--11152 []\T1/pcr/m/n/9 chk.n2 <- function(...) stopifnot(identical(print(...names()), names(list(...))))[] [163] [164] Underfull \hbox (badness 2828) in paragraph at lines 11271--11276 [][][]$\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 11271--11276 \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 11271--11276 \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 : Overfull \hbox (42.78088pt too wide) in paragraph at lines 11302--11302 [] \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "showA ttributes"))[] [165] Overfull \hbox (15.18042pt too wide) in paragraph at lines 11376--11376 []\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, ..[] [166] [167] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11525--11525 []\T1/pcr/m/n/9 aq <- transform(airquality, Month = factor(Month, labels = mon th.abb[5:9])) [168] [169] [170] Underfull \hbox (badness 6396) in paragraph at lines 11723--11731 []\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 11732--11734 []\T1/pcr/m/n/10 duplicated(x, fromLast = TRUE) []\T1/ptm/m/n/10 is equiv-a-len t to but faster than [171] [172] [173] Underfull \hbox (badness 10000) in paragraph at lines 11949--11952 []\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 [174] [175] [176] [177] [178] [179] Underfull \hbox (badness 2744) in paragraph at lines 12393--12395 []\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 [180] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12416--12416 []\T1/pcr/m/n/9 Encoding(x.) # "unknown" (UTF-8 loc.) | "latin1" (8859-1/CP-12 52 loc.) | ....[] [181] [182] [183] Underfull \hbox (badness 5288) in paragraph at lines 12668--12670 []\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 12678--12683 []\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 [184] Underfull \hbox (badness 10000) in paragraph at lines 12735--12738 []\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 12753--12755 []\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for [185] [186] [187] [188] Underfull \hbox (badness 10000) in paragraph at lines 13003--13005 []\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 13046--13048 []\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 [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13869--13869 []\T1/pcr/m/n/9 ## "avector" := vector that keeps attributes. Could provide a constructor[] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] Underfull \hbox (badness 2253) in paragraph at lines 14597--14599 []\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 14632--14635 []\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m a-tion is given about the [211] [212] Underfull \hbox (badness 2573) in paragraph at lines 14765--14767 []\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 = [213] [214] Underfull \hbox (badness 10000) in paragraph at lines 14924--14926 []\T1/ptm/m/n/10 logical: should file dates be pre-served where pos-si-ble? See [215] [216] Underfull \hbox (badness 10000) in paragraph at lines 15045--15049 [][][]\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 15056--15059 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . Overfull \hbox (47.58038pt too wide) in paragraph at lines 15077--15077 [] \T1/pcr/m/n/9 # |--> (TRUE,FALSE) : ok for A but not B as it exists already[] [217] Overfull \hbox (30.78088pt too wide) in paragraph at lines 15102--15102 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode = "0777")[] [218] Underfull \hbox (badness 10000) in paragraph at lines 15199--15202 [][][]\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 15209--15209 []\T1/pcr/m/n/9 f <- list.files(".", all.files = TRUE, full.names = TRUE, recu rsive = TRUE)[] [219] Underfull \hbox (badness 10000) in paragraph at lines 15275--15278 []\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 15292--15292 []\T1/pcr/m/n/9 ## will not give an error, maybe a warning about *all* locatio ns it is found:[] [220] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15321--15321 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F ALSE, Underfull \hbox (badness 3965) in paragraph at lines 15353--15357 []\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, [221] [222] [223] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15517--15517 [] \T1/pcr/m/n/10 .C(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO DING) Overfull \hbox (0.78088pt too wide) in paragraph at lines 15518--15518 [] \T1/pcr/m/n/10 .Fortran(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO DING)[] [224] [225] [226] [227] Overfull \hbox (63.78036pt too wide) in paragraph at lines 15760--15760 []\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 15763--15763 []\T1/pcr/m/n/9 ## formals returns NULL for primitive functions. Use it in co mbination with[] [228] Underfull \hbox (badness 1168) in paragraph at lines 15849--15853 []\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 15849--15853 \T1/ptm/m/n/10 tor should be en-coded in sci-en-tific for-mat, or an in-te-ger penalty (see [229] Underfull \hbox (badness 6944) in paragraph at lines 15946--15949 [][][]\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 , [230] Overfull \hbox (4.38043pt too wide) in paragraph at lines 15971--15971 []\T1/pcr/m/n/9 z <- list(a = letters[1:3], b = (-pi+0i)^((-2:2)/2), c = c(1,1 0,100,1000),[] [231] [232] Underfull \hbox (badness 10000) in paragraph at lines 16109--16111 []\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 16129--16129 [] \T1/pcr/m/n/10 decimal.mark = getOption("OutDec"), input.d.mark = decimal.mark,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16135--16135 []\T1/pcr/m/n/10 .format.zeros(x, zero.print, nx = suppressWarnings(as.numeric (x)),[] Underfull \hbox (badness 2790) in paragraph at lines 16142--16145 []\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 [233] Underfull \hbox (badness 1024) in paragraph at lines 16173--16180 []\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 [234] Underfull \hbox (badness 10000) in paragraph at lines 16248--16250 []\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 16270--16275 []\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 16276--16278 []\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 = Underfull \hbox (badness 10000) in paragraph at lines 16287--16295 []\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 [235] [236] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16395--16395 []\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 ")[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 16417--16417 []\T1/pcr/m/n/9 doLC <- FALSE # <= R warns, so change to TRUE manually if you want see the effect[] Underfull \vbox (badness 10000) has occurred while \output is active [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17251--17251 []\T1/pcr/m/n/9 utils::tail(getLoadedDLLs(), 2) # the last 2 loaded ones, stil l a DLLInfoList[] [249] [250] Underfull \hbox (badness 2418) in paragraph at lines 17360--17364 \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 , Underfull \hbox (badness 6510) in paragraph at lines 17367--17370 []\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 17402--17409 [][][]\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 , [251] [252] Underfull \hbox (badness 10000) in paragraph at lines 17509--17513 []\T1/ptm/m/n/10 The spe-cial case []\T1/pcr/m/n/10 bindtextdomain(NULL) []\T1/ ptm/m/n/10 calls C level Underfull \hbox (badness 3302) in paragraph at lines 17509--17513 []\T1/pcr/m/n/10 textdomain(textdomain(NULL)) []\T1/ptm/m/n/10 for the pur-pose of flush-ing (i.e., emp-ty-ing) the [253] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17572--17572 []\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 17575--17575 []\T1/pcr/m/n/9 gettext(enT, domain="R-stats")# "leeres Modell angegeben" (if translation works)[] Underfull \vbox (badness 10000) has occurred while \output is active [254] Overfull \hbox (15.18042pt too wide) in paragraph at lines 17606--17606 []\T1/pcr/m/n/9 ## Here, we reset to the *original* setting before the full ex ample started:[] [255] [256] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17743--17743 []\T1/pcr/m/n/10 grep(pattern, x, ignore.case = FALSE, perl = FALSE, value = F ALSE, Underfull \hbox (badness 1867) in paragraph at lines 17771--17778 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [257] [258] [259] [260] [261] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18089--18089 [] \T1/pcr/m/n/9 nms <- nms[is.na(match(nms, c("F","T")))] # <-- work around "checking hack"[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 18118--18118 []\T1/pcr/m/n/9 name.rex <- "(?[[:upper:]][[:lower:]]+) (?[[:uppe r:]][[:lower:]]+)"[] Underfull \vbox (badness 10000) has occurred while \output is active [262] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18174--18174 [] \T1/pcr/m/n/10 value = FALSE, fixed = FALSE, all = FALSE, invert = F ALSE)[] [263] [264] [265] [266] [267] Overfull \hbox (9.78043pt too wide) in paragraph at lines 18567--18567 []\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))) [268] Overfull \hbox (4.38043pt too wide) in paragraph at lines 18632--18632 []\T1/pcr/m/n/9 z <- gzcon(url("https://www.stats.ox.ac.uk/pub/datasets/csb/ch 12.dat.gz"))[] [269] [270] [271] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18845--18845 []\T1/pcr/m/n/10 iconv(x, from = "", to = "", sub = NA, mark = TRUE, toRaw = F ALSE) [272] [273] [274] [275] Underfull \hbox (badness 1163) in paragraph at lines 19189--19191 []\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 / [276] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19197--19197 []\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.[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 19227--19227 []\T1/pcr/m/n/10 identical(x, y, num.eq = TRUE, single.NA = TRUE, attrib.as.se t = TRUE, [277] Overfull \hbox (30.78088pt too wide) in paragraph at lines 19321--19321 [] \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 19322--19322 [] \T1/pcr/m/n/10 ignore.bytecode = FALSE, ignore.environment = F ALSE,[] [278] Overfull \hbox (25.98041pt too wide) in paragraph at lines 19375--19375 []\T1/pcr/m/n/9 ### For functions ("closure"s): ------------------------------ ----------------[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 19381--19381 []\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 19384--19384 []\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 19390--19390 []\T1/pcr/m/n/9 op <- options(keep.source = TRUE) # and so, these have differi ng "srcref" :[] [279] [280] Overfull \hbox (4.38043pt too wide) in paragraph at lines 19517--19517 []\T1/pcr/m/n/9 ## This is a (not atypical) case where it is better *not* to u se ifelse(),[] [281] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19525--19525 []\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):[] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 19730--19732 []\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 [284] [285] [286] [287] [288] Underfull \hbox (badness 10000) in paragraph at lines 20070--20076 Underfull \hbox (badness 10000) in paragraph at lines 20083--20085 []\T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . orac le . com / cd / E19957-[]01 / 806-[]3568 / ncg _ [289] [290] [291] Underfull \hbox (badness 4699) in paragraph at lines 20315--20318 []\T1/pcr/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 , [292] [293] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20443--20443 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = " GMT")[] [294] [295] [296] Underfull \hbox (badness 4739) in paragraph at lines 20578--20580 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [297] Overfull \hbox (36.7804pt too wide) in paragraph at lines 20627--20627 []\T1/pcr/m/n/9 isSymmetric(D3) # FALSE (as row and co lumn names differ)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 20628--20628 []\T1/pcr/m/n/9 isSymmetric(D3, check.attributes=FALSE) # TRUE (as names are not checked)[] [298] [299] Underfull \hbox (badness 2961) in paragraph at lines 20805--20808 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / [300] [301] [302] [303] [304] [305] [306] Underfull \hbox (badness 1975) in paragraph at lines 21246--21249 []\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 [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 1077) in paragraph at lines 21662--21667 []\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 Underfull \hbox (badness 10000) in paragraph at lines 21676--21683 [][][]$\T1/pcr/m/n/10 https : / / curl . se / docs / sslcerts . html$[][] \T1/p tm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / curl . se / docs / [313] Underfull \hbox (badness 1112) in paragraph at lines 21749--21758 []\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 , [314] Underfull \hbox (badness 2970) in paragraph at lines 21807--21810 []\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 21807--21810 \T1/ptm/m/n/10 hid-den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [315] [316] Underfull \hbox (badness 10000) in paragraph at lines 21920--21924 []\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 21920--21924 [][][]\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 21925--21932 []\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- [317] [318] Underfull \hbox (badness 10000) in paragraph at lines 22054--22061 [][][]\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 , [319] Underfull \hbox (badness 10000) in paragraph at lines 22175--22179 []\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 [320] Underfull \hbox (badness 5161) in paragraph at lines 22245--22250 []\T1/ptm/m/n/10 A small num-ber of files (some of the API header files) are di s-tributed un-der the Underfull \hbox (badness 6592) in paragraph at lines 22245--22250 \T1/ptm/m/n/10 LESSER GNU GEN-ERAL PUB-LIC LI-CENSE, ver-sion 2.1 or later. A c opy of Underfull \hbox (badness 5133) in paragraph at lines 22245--22250 \T1/ptm/m/n/10 this li-cense is in file `\T1/pcr/m/n/10 $R_SHARE_DIR/licenses/L GPL-2.1\T1/ptm/m/n/10 ' and can be viewed Underfull \hbox (badness 10000) in paragraph at lines 22245--22250 \T1/ptm/m/n/10 by []\T1/pcr/m/n/10 RShowDoc("LGPL-2.1")[]\T1/ptm/m/n/10 . Ver-s ion 3 of the li-cense can be dis-played by [321] [322] [323] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22413--22413 [] \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22417--22417 [] \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = FALSE)[] [324] Underfull \hbox (badness 3343) in paragraph at lines 22478--22482 [][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil e.access[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 files[][][] []\T1/ptm/ m/n/10 for many more file han-dling func-tions and [325] [326] Overfull \hbox (4.38043pt too wide) in paragraph at lines 22616--22616 [] \T1/pcr/m/n/9 identical(L$b, e$b)) # "$" working for environments as for lists[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 22627--22627 [] \T1/pcr/m/n/9 df = data.frame(x = rnorm(20), y = rbinom(20, 1, prob = 0.2))),[] [327] [328] Overfull \hbox (9.78043pt too wide) in paragraph at lines 22738--22738 []\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 22741--22741 []\T1/pcr/m/n/9 attach("all.rda") # safer and will warn about masked objects w / same name in .GlobalEnv[] Underfull \hbox (badness 6380) in paragraph at lines 22788--22796 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup- [329] [330] Underfull \hbox (badness 2564) in paragraph at lines 22891--22894 []\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 Overfull \hbox (4.38043pt too wide) in paragraph at lines 22932--22932 []\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 22936--22936 []\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 22940--22940 []\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 22947--22947 []\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 22949--22949 []\T1/pcr/m/n/9 Sys.setenv("LANGUAGE" = "es") # set the language for error/war ning messages[] [331] Overfull \hbox (42.18039pt too wide) in paragraph at lines 22957--22957 [] \T1/pcr/m/n/9 sg <- matrix(unlist(strsplit(strsplit(Sys.getlocale(), sep)[[ 1]], "=")), nrow=2)[] [332] [333] Underfull \hbox (badness 1400) in paragraph at lines 23118--23122 [][][]\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 [334] [335] [336] [337] [338] [339] [340] [341] [342] [343] [344] [345] Overfull \hbox (52.98038pt too wide) in paragraph at lines 23960--23960 []\T1/pcr/m/n/9 zN <- c(complex(real = NA , imaginary = r ), complex(real = r , imaginary = NA ),[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 23961--23961 [] \T1/pcr/m/n/9 complex(real = r , imaginary = NaN), complex(real = N aN, imaginary = r ))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 23964--23964 []\T1/pcr/m/n/9 zM ##--> many "NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s" (= 1) and th e four non-NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s (3 different ones, at 7,9,10)[] [346] [347] Overfull \hbox (20.58041pt too wide) in paragraph at lines 24061--24061 []\T1/pcr/m/n/9 match.arg(c("a", ""), c("", NA, "bb", "abc"), several.ok=TRUE ) # |--> "abc"[] Underfull \hbox (badness 1655) in paragraph at lines 24095--24099 []\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion (also known as a `clo-sure'): [348] [349] [350] [351] Underfull \hbox (badness 2277) in paragraph at lines 24346--24349 []\T1/ptm/m/n/10 For ma-trix \T1/ptm/m/it/10 cross\T1/ptm/m/n/10 products, [][] []\T1/pcr/m/n/10 crossprod[][][]() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 tcross prod() []\T1/ptm/m/n/10 are typ-i-cally prefer-able. [352] [353] [354] [355] [356] [357] [358] [359] [360] Underfull \hbox (badness 1484) in paragraph at lines 24933--24941 []\T1/ptm/m/n/10 The address-space limit is 2Gb un-der 32-bit Win-dows un-less the OS's de-fault has been Underfull \hbox (badness 1152) in paragraph at lines 24933--24941 \T1/ptm/m/n/10 changed to al-low more (up to 3Gb). See [][]$\T1/pcr/m/n/10 http s : / / docs . microsoft . com / en-[]gb / [361] Overfull \hbox (0.78088pt too wide) in paragraph at lines 25007--25007 [] \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y = all,[] [362] [363] [364] [365] [366] [367] [368] [369] Underfull \hbox (badness 1448) in paragraph at lines 25554--25562 []\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 = [370] Underfull \hbox (badness 3849) in paragraph at lines 25669--25674 []\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 [371] Underfull \hbox (badness 2165) in paragraph at lines 25746--25752 []\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 25746--25752 \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 25746--25752 \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, [372] [373] [374] Underfull \hbox (badness 2237) in paragraph at lines 25909--25911 []\T1/ptm/m/n/10 character string: par-tial match-ing to one of []\T1/pcr/m/n/1 0 c("bytes", "chars", [375] [376] [377] Underfull \hbox (badness 6188) in paragraph at lines 26136--26139 []\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 [378] [379] [380] Underfull \hbox (badness 1521) in paragraph at lines 26321--26335 \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- [381] [382] [383] [384] Underfull \hbox (badness 2197) in paragraph at lines 26635--26639 []\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 26635--26639 []\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 [385] Underfull \hbox (badness 2846) in paragraph at lines 26649--26653 []\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 26649--26653 \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 26691--26691 []\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 26695--26695 [] \T1/pcr/m/n/10 keep.parse.data = getOption("keep.parse.data.pk gs"))[] [386] Underfull \hbox (badness 10000) in paragraph at lines 26744--26750 []\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 26744--26750 []\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 26757--26759 []\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% [387] Overfull \hbox (4.38043pt too wide) in paragraph at lines 26824--26824 [] \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 interchangably here:[] [388] [389] [390] Underfull \hbox (badness 8189) in paragraph at lines 27019--27025 []\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[][][] [391] [392] [393] Underfull \hbox (badness 2591) in paragraph at lines 27245--27253 \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 [394] [395] [396] [397] Underfull \hbox (badness 1603) in paragraph at lines 27527--27529 []\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a re con-verted by [398] [399] Underfull \hbox (badness 1210) in paragraph at lines 27654--27662 []\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- [400] [401] Underfull \hbox (badness 3271) in paragraph at lines 27874--27877 []\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men t vari-able [402] [403] [404] Underfull \hbox (badness 3138) in paragraph at lines 28180--28186 []\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 28180--28186 \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 28180--28186 \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 [405] Underfull \hbox (badness 1194) in paragraph at lines 28193--28196 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/pcr/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/pcr/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 1389) in paragraph at lines 28219--28221 []\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 28246--28252 []\T1/ptm/m/n/10 logical: should per-directory pack-age lock-ing be used by Underfull \hbox (badness 3826) in paragraph at lines 28261--28266 []\T1/ptm/m/n/10 Used by [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly [406] Underfull \hbox (badness 1009) in paragraph at lines 28279--28282 []\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 Underfull \hbox (badness 10000) in paragraph at lines 28295--28298 []\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle d -- see Underfull \hbox (badness 10000) in paragraph at lines 28303--28309 []\T1/pcr/m/n/10 "source" []\T1/ptm/m/n/10 (the de-fault ex-cept un-der a CRAN ma-cOS Underfull \hbox (badness 10000) in paragraph at lines 28303--28309 \T1/ptm/m/n/10 build), []\T1/pcr/m/n/10 "mac.binary" []\T1/ptm/m/n/10 and []\T1 /pcr/m/n/10 "both" []\T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS Underfull \hbox (badness 10000) in paragraph at lines 28303--28309 \T1/ptm/m/n/10 builds). ([]\T1/pcr/m/n/10 "mac.binary.el-capitan"[]\T1/ptm/m/n/ 10 , []\T1/pcr/m/n/10 "mac.binary.mavericks"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 5091) in paragraph at lines 28303--28309 []\T1/pcr/m/n/10 "mac.binary.leopard" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "ma c.binary.universal" []\T1/ptm/m/n/10 are no longer [407] [408] [409] [410] [411] Overfull \hbox (4.38043pt too wide) in paragraph at lines 28675--28675 []\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 28688--28692 []\T1/ptm/m/n/10 where el-e-ment []\T1/pcr/m/n/10 A[c(arrayindex.x, arrayindex. y)] = FUN(X[arrayindex.x], [412] [413] Underfull \hbox (badness 1210) in paragraph at lines 28835--28838 []\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, [414] [415] [416] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29031--29031 []\T1/pcr/m/n/9 tryCatch(parse(text = txt, srcfile = sf), error = function(e) "Syntax error.")[] [417] Underfull \hbox (badness 7133) in paragraph at lines 29117--29123 [][][]\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 29139--29139 []\T1/pcr/m/n/9 ## Notice that the recycling rules make every input as long as the longest input.[] [418] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29151--29151 []\T1/pcr/m/n/9 paste("1st", "2nd", "3rd", collapse = ", ") # probably not wha t you wanted[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 29164--29164 []\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 more vectorized behaviour, i.e. zero-length recycling : [] Overfull \hbox (63.78036pt too wide) in paragraph at lines 29168--29168 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- good: empty!", recycle0= TRUE) # -> character(0)[] [419] [420] [421] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29356--29356 []\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 29374--29374 []\T1/pcr/m/n/9 stop() |> (function(...) {})() # stop() is not used on RHS so is not evaluated[] [422] Underfull \hbox (badness 1360) in paragraph at lines 29429--29433 []\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 = [423] [424] [425] [426] Underfull \hbox (badness 2277) in paragraph at lines 29741--29746 \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 [427] [428] Underfull \hbox (badness 1701) in paragraph at lines 29857--29861 []\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 = [429] Underfull \hbox (badness 1796) in paragraph at lines 29925--29928 []\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 [430] [431] [432] [433] Underfull \hbox (badness 10000) in paragraph at lines 30129--30132 []\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 [434] [435] [436] [437] [438] [439] [440] [441] Underfull \hbox (badness 2961) in paragraph at lines 30675--30678 []\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 : / / [442] [443] Overfull \hbox (25.98041pt too wide) in paragraph at lines 30824--30824 [] \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))[] [444] [445] [446] [447] Overfull \hbox (15.18042pt too wide) in paragraph at lines 31117--31117 []\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 31128--31128 []\T1/pcr/m/n/9 n2 <- "\U0126\U0119\U1114\U022d\U2001\U03e2\U0954\U0f3f\U13d3\ U147b\U203c"[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 31134--31134 []\T1/pcr/m/n/9 ## https://cran.r-project.org/doc/manuals/r-release/R-lang.htm l#Literal-constants[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 31140--31140 []\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 [448] [449] Underfull \hbox (badness 7415) in paragraph at lines 31237--31243 []\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$os []\T1/ptm/m/n/10 to test the plat-form the code is run-ning on: use Overfull \hbox (42.18039pt too wide) in paragraph at lines 31261--31261 []\T1/pcr/m/n/9 mtext(R.version.string, side = 1, line = 4, adj = 1) # a usefu l bottom-right note[] [450] Overfull \hbox (6.78088pt too wide) in paragraph at lines 31307--31307 []\T1/pcr/m/n/10 set.seed(seed, kind = NULL, normal.kind = NULL, sample.kind = NULL)[] [451] [452] Underfull \hbox (badness 3713) in paragraph at lines 31452--31463 []\T1/pcr/m/n/10 normal.kind []\T1/ptm/m/n/10 can be []\T1/pcr/m/n/10 "Kinderma n-Ramage"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Buggy Kinderman-Ramage" []\T1/ptm /m/n/10 (not [453] Underfull \hbox (badness 1248) in paragraph at lines 31604--31611 \T1/ptm/m/n/10 uni-form pseudo-random num-ber gen-er-a-tor, \T1/ptm/m/it/10 ACM Trans-ac-tions on Mod-el-ing and Com-puter Underfull \hbox (badness 10000) in paragraph at lines 31604--31611 \T1/ptm/m/n/10 Now see [][]$\T1/pcr/m/n/10 http : / / www . math . sci . hirosh ima-[]u . ac . jp / ~m-[]mat / MT / VERSIONS / [454] [455] Underfull \hbox (badness 1533) in paragraph at lines 31722--31725 []\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 [456] [457] Overfull \hbox (42.78088pt too wide) in paragraph at lines 31867--31867 [] \T1/pcr/m/n/10 ties.method = c("average", "first", "last", "random", "m ax", "min"))[] [458] Underfull \hbox (badness 1038) in paragraph at lines 31885--31896 []\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 [459] [460] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32029--32029 []\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 32031--32031 []\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 32032--32032 []\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 32033--32033 []\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 32034--32034 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", h ow = "unlist")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32041--32041 []\T1/pcr/m/n/9 rapply(E, nchar, classes = "character", deflt = NA_integer_, h ow = "unlist")[] [461] [462] [463] [464] [465] Overfull \hbox (25.98041pt too wide) in paragraph at lines 32349--32349 []\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 32351--32351 []\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 32361--32361 []\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 32362--32362 []\T1/pcr/m/n/9 d2b <- function(x) vapply(as.double(x), function(x) numToBits(x) , raw(64L))[] [466] Underfull \hbox (badness 4048) in paragraph at lines 32457--32462 []\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 32457--32462 \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 32457--32462 \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 , [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 2080) in paragraph at lines 32997--33007 []\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), [475] Overfull \hbox (4.38043pt too wide) in paragraph at lines 33031--33031 []\T1/pcr/m/n/9 ## or examine the object via a connection, which will be opene d as needed.[] [476] [477] [478] [479] [480] [481] [482] Underfull \hbox (badness 7558) in paragraph at lines 33551--33555 []\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 33561--33563 []\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 Underfull \hbox (badness 10000) in paragraph at lines 33572--33574 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / Underfull \hbox (badness 1975) in paragraph at lines 33575--33579 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/pc r/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/pcr/m /n/10 https : / / www . [483] [484] Underfull \vbox (badness 10000) has occurred while \output is active [485] [486] [487] [488] Overfull \hbox (4.38043pt too wide) in paragraph at lines 33946--33946 []\T1/pcr/m/n/9 rep(1:4, each = 2, times = 3) # length 24, 3 complete replications[] [489] Underfull \hbox (badness 10000) in paragraph at lines 34017--34021 [][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] [] []NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple x_[][][] [490] [491] [492] Underfull \hbox (badness 2302) in paragraph at lines 34245--34250 []\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 34245--34250 \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 - [493] [494] Overfull \hbox (12.78088pt too wide) in paragraph at lines 34378--34378 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"))[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 34381--34381 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 34388--34388 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"),[] [495] [496] [497] [498] [499] [500] [501] Overfull \hbox (66.78088pt too wide) in paragraph at lines 34836--34836 [] \T1/pcr/m/n/10 useHash = (n > 1e+07 && !replace && is.null(prob) && size <= n/2))[] [502] [503] [504] [505] [506] [507] Overfull \hbox (12.78088pt too wide) in paragraph at lines 35273--35273 [] \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, skipNul = FALSE)[] [508] [509] Underfull \hbox (badness 1158) in paragraph at lines 35377--35382 []\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 [510] [511] Overfull \hbox (15.18042pt too wide) in paragraph at lines 35563--35563 []\T1/pcr/m/n/9 cat("TITLE extra line", "2 3 5 7", "11 13 17", file = "ex.data ", sep = "\n") [512] [513] [514] Underfull \hbox (badness 4752) in paragraph at lines 35822--35825 []\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 35826--35832 []\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 [515] [516] [517] [518] [519] [520] [521] [522] [523] Underfull \hbox (badness 6094) in paragraph at lines 36412--36416 []\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 36412--36416 \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 [524] [525] Underfull \hbox (badness 3826) in paragraph at lines 36503--36514 []\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 36503--36514 \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 36503--36514 \T1/ptm/m/n/10 are given at [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / en-[]us / cpp / c-[]language / Underfull \hbox (badness 1635) in paragraph at lines 36503--36514 \T1/pcr/m/n/10 parsing-[]c-[]command-[]line-[]arguments ? view = msvc-[]160$[][ ]\T1/ptm/m/n/10 . It may de-pend on the [526] [527] [528] [529] [530] [531] [532] [533] Overfull \hbox (66.78088pt too wide) in paragraph at lines 37057--37057 [] \T1/pcr/m/n/10 method = c("auto", "shell", "quick", "radix"), index .return = FALSE)[] [534] [535] [536] [537] Overfull \hbox (6.78088pt too wide) in paragraph at lines 37309--37309 [] \T1/pcr/m/n/10 print. = TRUE, echo = TRUE, max.deparse.length = Inf,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 37311--37311 [] \T1/pcr/m/n/10 deparseCtrl = c("keepInteger", "showAttributes" , "keepNA"),[] Underfull \hbox (badness 4954) in paragraph at lines 37354--37360 [][][]\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 37354--37360 [][][]\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 [538] [539] Overfull \hbox (20.58041pt too wide) in paragraph at lines 37465--37465 []\T1/pcr/m/n/9 ## (all should look "as if on top level", e.g. non-assignments should print:)[] [540] [541] [542] [543] [544] Overfull \hbox (4.38043pt too wide) in paragraph at lines 37808--37808 []\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 37823--37823 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is being added[] [545] [546] [547] Underfull \hbox (badness 10000) in paragraph at lines 38048--38050 [][][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / [548] [549] [550] Overfull \hbox (12.78088pt too wide) in paragraph at lines 38275--38275 []\T1/pcr/m/n/10 srcfile(filename, encoding = getOption("encoding"), Enc = "un known") Overfull \hbox (12.78088pt too wide) in paragraph at lines 38276--38276 []\T1/pcr/m/n/10 srcfilecopy(filename, lines, timestamp = Sys.time(), isFile = FALSE)[] [551] [552] [553] [554] [555] Overfull \hbox (63.78036pt too wide) in paragraph at lines 38607--38607 []\T1/pcr/m/n/9 startsWith(search(), "package:") # typically at least two FALS E, nowadays often three [556] Underfull \hbox (badness 6110) in paragraph at lines 38703--38713 []\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 38703--38713 \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 38703--38713 \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 38703--38713 \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 38703--38713 \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 [557] Underfull \hbox (badness 10000) in paragraph at lines 38759--38765 []\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 38759--38765 \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 38759--38765 \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 38774--38781 []\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 38774--38781 \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 38774--38781 \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 [558] Overfull \hbox (4.38043pt too wide) in paragraph at lines 38836--38836 []\T1/pcr/m/n/9 # Variable expansion in double quotes, string literals with ba ckslashes in[] [559] [560] [561] Underfull \hbox (badness 1484) in paragraph at lines 39009--39013 []\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 39074--39074 [] \T1/pcr/m/n/10 assert <- function(exprs) eval.parent(substitute(stopifnot(e xprs = exprs))) [562] [563] Underfull \hbox (badness 1436) in paragraph at lines 39176--39180 []\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 [564] [565] [566] [567] [568] Overfull \hbox (15.18042pt too wide) in paragraph at lines 39569--39569 []\T1/pcr/m/n/9 z3 # prints without fractional seconds by default, digits.sec = NULL ("= 0")[] [569] Overfull \hbox (9.78043pt too wide) in paragraph at lines 39597--39597 []\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 39598--39598 []\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")[] [570] Overfull \hbox (0.78088pt too wide) in paragraph at lines 39710--39710 [] \T1/pcr/m/n/10 add the string to the left of the match to the ou tput.[] [571] [572] [573] [574] Overfull \hbox (6.78088pt too wide) in paragraph at lines 39973--39973 [] \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p refix)[] [575] Overfull \hbox (4.38043pt too wide) in paragraph at lines 40017--40017 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll apse = "\n")[] [576] [577] [578] [579] [580] [581] Overfull \hbox (52.98038pt too wide) in paragraph at lines 40464--40464 []\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 40467--40467 []\T1/pcr/m/n/9 ## If there are missing values, the sum is unknown, i.e., also missing, ....[] [582] Underfull \hbox (badness 10000) in paragraph at lines 40518--40525 []\T1/ptm/m/n/10 integer, used for num-ber for-mat-ting with [][][]\T1/pcr/m/n/ 10 signif[][][]() []\T1/ptm/m/n/10 (for Underfull \hbox (badness 10000) in paragraph at lines 40518--40525 []\T1/pcr/m/n/10 summary.default[]\T1/ptm/m/n/10 ) or [][][]\T1/pcr/m/n/10 form at[][][]() []\T1/ptm/m/n/10 (for []\T1/pcr/m/n/10 summary.data.frame[]\T1/ptm/m /n/10 ). [583] Overfull \hbox (4.38043pt too wide) in paragraph at lines 40571--40571 []\T1/pcr/m/n/9 summary(attenu, digits = 4) #-> summary.data.frame(...), defau lt precision [584] [585] [586] [587] [588] Overfull \hbox (31.3804pt too wide) in paragraph at lines 40885--40885 [] \T1/pcr/m/n/9 cat(ch,":", switch(EXPR = ch, a =, A = 1, b = 2:3, "Otherw ise: last"),"\n")[] [589] [590] [591] Overfull \hbox (20.58041pt too wide) in paragraph at lines 41090--41090 []\T1/pcr/m/n/9 if(.Platform$OS.type == "unix") ## on Unix-alikes such Linux, macOS, FreeBSD:[] [592] Underfull \hbox (badness 2293) in paragraph at lines 41120--41126 []\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 41120--41126 \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 41139--41144 []\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 41139--41144 []\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 [593] [594] [595] [596] Underfull \hbox (badness 10000) in paragraph at lines 41427--41431 []\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 Underfull \hbox (badness 1584) in paragraph at lines 41442--41445 []\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 [597] [598] Overfull \hbox (25.98041pt too wide) in paragraph at lines 41580--41580 []\T1/pcr/m/n/9 is.symlink <- function(paths) isTRUE(nzchar(Sys.readlink(paths ), keepNA=TRUE))[] [599] Overfull \hbox (19.22812pt too wide) in paragraph at lines 41661--41661 []\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 [600] [601] [602] Underfull \hbox (badness 1082) in paragraph at lines 41806--41809 []\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 Underfull \hbox (badness 10000) in paragraph at lines 41833--41835 [][][]\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 [603] [604] [605] Underfull \hbox (badness 1038) in paragraph at lines 41999--42002 []\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 [606] [607] [608] [609] [610] Underfull \hbox (badness 1442) in paragraph at lines 42364--42368 \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 = [611] [612] [613] [614] Underfull \hbox (badness 4096) in paragraph at lines 42618--42621 []\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 , [615] Underfull \hbox (badness 7888) in paragraph at lines 42732--42736 []\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) > [616] [617] [618] Overfull \hbox (63.78036pt too wide) in paragraph at lines 42894--42894 [] \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 42896--42896 [] \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 42898--42898 [] \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 42911--42913 []\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 [619] Underfull \hbox (badness 10000) in paragraph at lines 42991--42994 [][][]\T1/pcr/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . [620] [621] Underfull \hbox (badness 3872) in paragraph at lines 43109--43112 []\T1/ptm/m/n/10 Duncan Tem-ple Lang (2001) \T1/ptm/m/it/10 Top-level Task Call -backs in R\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / developer . [622] Underfull \hbox (badness 5475) in paragraph at lines 43175--43179 [][][]\T1/pcr/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/pcr/m/n/10 https : / / [623] [624] [625] [626] [627] [628] Underfull \hbox (badness 1655) in paragraph at lines 43598--43605 \T1/ptm/m/n/10 may also be known as `[]\T1/pcr/m/n/10 GB[]\T1/ptm/m/n/10 ', `[] \T1/pcr/m/n/10 GB-Eire[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Belfast[]\T1 /ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Guernsey[]\T1/ptm/m/n/10 ', Underfull \hbox (badness 2253) in paragraph at lines 43606--43611 []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-turns a char-ac-ter vec-tor, se e the ex-am-ples for typ-i-cal cases. It may Underfull \hbox (badness 1655) in paragraph at lines 43606--43611 \T1/ptm/m/n/10 have an at-tribute []\T1/pcr/m/n/10 "Version"[]\T1/ptm/m/n/10 , some-thing like `[]\T1/pcr/m/n/10 "2023a"[]\T1/ptm/m/n/10 '. (It does on sys-te ms us-ing [629] Underfull \hbox (badness 4467) in paragraph at lines 43656--43665 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re- turns the time-zone names known to the cur-rently se- Underfull \hbox (badness 3954) in paragraph at lines 43656--43665 \T1/ptm/m/n/10 lected Ol-son/IANA database. The system-specific lo-ca-tion in t he file sys-tem varies, [630] Underfull \hbox (badness 1337) in paragraph at lines 43759--43767 \T1/ptm/m/n/10 a file `\T1/pcr/m/n/10 localtime\T1/ptm/m/n/10 ', usu-ally un-de r `\T1/pcr/m/n/10 /etc\T1/ptm/m/n/10 ' (but pos-si-bly un-der `\T1/pcr/m/n/10 / usr/local/etc\T1/ptm/m/n/10 ' or Underfull \hbox (badness 10000) in paragraph at lines 43768--43771 []\T1/ptm/m/n/10 `Because the time zone iden-ti-fier is ex-tracted from the sym -link tar-get name of [631] Underfull \hbox (badness 3460) in paragraph at lines 43824--43827 [][][]$\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 43828--43830 [][][]$\T1/pcr/m/n/10 https : / / data . iana . org / time-[]zones / theory . h tml$[][] \T1/ptm/m/n/10 for the `rules' of the Ol- Overfull \hbox (31.3804pt too wide) in paragraph at lines 43837--43837 []\T1/pcr/m/n/9 ## typically some acronyms/aliases such as "UTC", "NZ", "MET", "Eire", ..., but[] [632] [633] [634] [635] [636] Overfull \hbox (15.18042pt too wide) in paragraph at lines 44180--44180 []\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 44182--44182 []\T1/pcr/m/n/9 power.t.test(20, 1, power=0.8, sd=NULL) ##--> showing the ncp root finding:[] [637] [638] Overfull \hbox (84.78088pt too wide) in paragraph at lines 44282--44282 [] \T1/pcr/m/n/10 getOption("deparse .max.lines", -1L)))[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 44284--44284 [] \T1/pcr/m/n/10 getOption("deparse .max.lines", -1L)))[] [639] [640] [641] Underfull \hbox (badness 6542) in paragraph at lines 44558--44560 []\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 [642] [643] Overfull \hbox (30.78088pt too wide) in paragraph at lines 44677--44677 []\T1/pcr/m/n/10 trimws(x, which = c("both", "left", "right"), whitespace = "[ \t\r\n]") [644] Underfull \hbox (badness 1708) in paragraph at lines 44745--44753 []\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 44745--44753 \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 [645] Underfull \hbox (badness 4859) in paragraph at lines 44785--44790 [][][]\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; [646] Underfull \hbox (badness 3895) in paragraph at lines 44847--44859 []\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 44847--44859 \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 , [647] [648] [649] [650] [651] Overfull \hbox (9.78043pt too wide) in paragraph at lines 45195--45195 []\T1/pcr/m/n/9 ll <- list(as.name("sinc"), quote( a + b ), 1:10, letters, exp ression(1+x))[] [652] [653] Underfull \hbox (badness 1137) in paragraph at lines 45289--45296 []\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 [654] [655] [656] [657] [658] Overfull \hbox (4.38043pt too wide) in paragraph at lines 45667--45667 []\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 45676--45676 []\T1/pcr/m/n/9 system(paste("od -x", foo)) # 2-byte units, correct on little- endian platforms[] [659] Underfull \hbox (badness 2057) in paragraph at lines 45742--45748 [][][]\T1/pcr/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/pcr/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , Underfull \hbox (badness 3861) in paragraph at lines 45751--45756 [][][]\T1/pcr/m/n/10 dir.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 di r.exists[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 normalizePath[][][][]\T1/ ptm/m/n/10 , [][][]\T1/pcr/m/n/10 path.expand[][][][]\T1/ptm/m/n/10 , [][][]\T1 /pcr/m/n/10 pipe[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Sys.glob[][][][]\ T1/ptm/m/n/10 , [660] Overfull \hbox (36.7804pt too wide) in paragraph at lines 45844--45844 []\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[] [661] Underfull \hbox (badness 1803) in paragraph at lines 45907--45910 []\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 45911--45917 []\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 [662] [663] [664] [665] Underfull \hbox (badness 3668) in paragraph at lines 46140--46142 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [666] Overfull \hbox (36.78088pt too wide) in paragraph at lines 46246--46246 [] \T1/pcr/m/n/10 header = ngettext(n, "Warning message:\n", "Warning mes sages:\n"),[] [667] Overfull \hbox (4.38043pt too wide) in paragraph at lines 46321--46321 []\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 46329--46329 []\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 ...[] [668] Underfull \hbox (badness 1783) in paragraph at lines 46394--46396 []\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., [669] Overfull \hbox (25.98041pt too wide) in paragraph at lines 46424--46424 []\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 46436--46436 []\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 46439--46439 []\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[] [670] Underfull \hbox (badness 10000) in paragraph at lines 46501--46506 []\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 46501--46506 []\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 [671] Underfull \hbox (badness 2818) in paragraph at lines 46597--46603 []\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 [672] Overfull \hbox (15.18042pt too wide) in paragraph at lines 46632--46632 []\T1/pcr/m/n/9 ## Find the first occurrence, i.e. the first TRUE, if there is at least one:[] [673] [674] [675] [676] [677] [678] Underfull \hbox (badness 2846) in paragraph at lines 47091--47095 []\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 [679] Overfull \hbox (4.38043pt too wide) in paragraph at lines 47131--47131 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char acter vector[] Underfull \hbox (badness 3209) in paragraph at lines 47152--47156 []\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 [680]) (./compiler-pkg.tex Chapter 2. [681] Underfull \hbox (badness 2884) in paragraph at lines 106--120 []\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 106--120 \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 [682] [683] [684]) (./datasets-pkg.tex Chapter 3. [685] [686] [687] [688] [689] Overfull \hbox (15.18042pt too wide) in paragraph at lines 301--301 [] \T1/pcr/m/n/9 plot(ff, data = anscombe, col = "red", pch = 21, bg = "orang e", cex = 1.2,[] [690] 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)[] Underfull \vbox (badness 1472) has occurred while \output is active [691] [692] [693] [694] Overfull \hbox (4.38043pt too wide) in paragraph at lines 617--617 [] \T1/pcr/m/n/9 start = c(lrc = log(.35)), algorithm = "plinear", t race = TRUE)[] [695] Underfull \hbox (badness 4779) in paragraph at lines 704--707 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [696] [697] Underfull \hbox (badness 4779) in paragraph at lines 837--840 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [698] [699] [700] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [701] Underfull \hbox (badness 4779) in paragraph at lines 1152--1155 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [702] [703] [704] [705] [706] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1464--1464 []\T1/pcr/m/n/9 plot(names(te), te, type = "h", main = f.tit, xlab = "Eruption time (sec)")[] [707] [708] Underfull \hbox (badness 10000) in paragraph at lines 1549--1552 []\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 1549--1552 []\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 [709] [710] [711] Underfull \hbox (badness 4779) in paragraph at lines 1738--1741 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [712] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1832--1832 []\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 1840--1840 [] \T1/pcr/m/n/9 model3 <- clogit(case ~ spontaneous+induced+strata(stratum), data = infert)[] [713] [714] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1956--1956 [] \T1/pcr/m/n/9 sub(" W.",".Width", dn i3[[2]])))),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1957--1957 [] \T1/pcr/m/n/9 Species = gl(3, 50, labels = sub("S", "s", sub("V", "v", d ni3[[3]]))))[] [715] [716] [717] [718] Underfull \hbox (badness 4779) in paragraph at lines 2160--2163 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [719] [720] [721] Overfull \vbox (4.29591pt too high) has occurred while \output is active [722] [723] [724] [725] [726] Underfull \hbox (badness 4779) in paragraph at lines 2725--2728 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [727] Overfull \vbox (13.87083pt too high) has occurred while \output is active [728] Underfull \vbox (badness 2376) has occurred while \output is active [729] [730] [731] [732] [733] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3154--3154 []\T1/pcr/m/n/9 pairs(quakes, main = "Fiji Earthquakes, N = 1000", cex.main = 1.2, pch = ".")[] [734] [735] [736] [737] [738] [739] Overfull \hbox (47.58038pt too wide) in paragraph at lines 3505--3505 []\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 3507--3507 []\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 3508--3508 []\T1/pcr/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis t.html#Geographic%20Centers[] [740] [741] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3639--3639 [] \T1/pcr/m/n/9 ## The yearly series *is* close to the averages of t he monthly one:[] [742] [743] [744] Underfull \hbox (badness 4779) in paragraph at lines 3787--3790 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [745] [746] [747] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3996--3996 [] \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of supplement")[] Underfull \hbox (badness 10000) in paragraph at lines 4034--4036 []\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 4034--4036 \T1/pcr/m/n/10 20110523225828 / http : / / www . ltrr . arizona . edu / ~hallma n / sitephotos / [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761]) (./grDevices-pkg.tex [762] Chapter 4. [763] [764] [765] [766] Underfull \hbox (badness 4752) in paragraph at lines 298--303 []\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/p tm/m/n/10 in [767] [768] [769] [770] Overfull \hbox (6.78088pt too wide) in paragraph at lines 519--519 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d .pdf",[] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] Underfull \hbox (badness 5175) in paragraph at lines 1193--1195 []\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 [781] [782] [783] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1364--1364 []\T1/pcr/m/n/9 zapsmall(lab <- convertColor(cols, from = "sRGB", to = "Lab", scale.in = 255))[] [784] [785] [786] Underfull \hbox (badness 3302) in paragraph at lines 1625--1629 []\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 1625--1629 []\T1/pcr/m/n/10 c("LinearGradient", "RadialGradient", "TilingPattern") [787] [788] [789] [790] [791] Underfull \hbox (badness 1565) in paragraph at lines 1916--1921 []\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 1916--1921 \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 [792] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1999--1999 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res = 72,[] [793] Underfull \hbox (badness 1184) in paragraph at lines 2040--2050 []\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 2040--2050 []\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 , [794] Underfull \hbox (badness 10000) in paragraph at lines 2152--2154 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [795] [796] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2288--2288 []\T1/pcr/m/n/10 embedGlyphs(file, glyphInfo, outfile = file, options = charac ter())[] [797] Underfull \hbox (badness 6758) in paragraph at lines 2338--2341 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [798] [799] Underfull \hbox (badness 2326) in paragraph at lines 2456--2466 []\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 2456--2466 \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 2456--2466 \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 2456--2466 []\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 [800] [801] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2559--2559 []\T1/pcr/m/n/9 dragplot <- function(..., xlim = NULL, ylim = NULL, xaxs = "r" , yaxs = "r") {[] Underfull \vbox (badness 10000) has occurred while \output is active [802] [803] [804] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2815--2815 []\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 2816--2816 []\T1/pcr/m/n/10 grey.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re v = FALSE)[] [805] [806] [807] [808] [809] Underfull \hbox (badness 10000) in paragraph at lines 3089--3090 Underfull \vbox (badness 10000) has occurred while \output is active [810] [811] [812] [813] [814] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3422--3422 []\T1/pcr/m/n/10 colorConverter(toXYZ, fromXYZ, name, white = NULL, vectorized = FALSE)[] [815] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3506--3506 []\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 3507--3507 []\T1/pcr/m/n/9 (hex <- convertColor(luv, from = "Luv", to = hexcolor, scale. out = NULL))[] [816] [817] [818] Underfull \hbox (badness 10000) in paragraph at lines 3665--3671 []\T1/pcr/m/n/10 nclass.FD []\T1/ptm/m/n/10 uses the Freedman-Diaconis choice b ased on the inter-quartile range [819] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3740--3740 []\T1/pcr/m/n/10 palette.colors(n = NULL, palette = "Okabe-Ito", alpha, recycl e = FALSE)[] [820] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3824--3824 []\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 3844--3844 []\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 3851--3851 [] \T1/pcr/m/n/9 matplot(x, type = "l", lwd = 4, lty = 1, col = 1:8, ylab = "", main=main)[] [821] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3907--3907 []\T1/pcr/m/n/10 hcl.colors(n, palette = "viridis", alpha = NULL, rev = FALSE, fixup = TRUE) [822] Underfull \hbox (badness 8170) in paragraph at lines 3936--3939 []\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 , [823] Underfull \hbox (badness 2189) in paragraph at lines 3997--4002 []\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, Underfull \hbox (badness 10000) in paragraph at lines 4035--4039 \T1/pcr/m/n/10 wikipedia . org / w / index . php ? title = HCL _ color _ space & oldid = 883465135$[][]\T1/ptm/m/n/10 . [824] Underfull \vbox (badness 10000) has occurred while \output is active [825] Underfull \hbox (badness 5260) in paragraph at lines 4165--4168 []\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 [826] [827] [828] [829] [830] Underfull \hbox (badness 5939) in paragraph at lines 4504--4509 []\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 , [831] [832]pdfTeX warning (ext4): destination with the same identifier (name{Rf n.symbol}) has been already used, duplicate ignored \relax l.4681 \aliasA{symbol}{plotmath}{symbol} [833] [834] [835] [836] [837] [838] Overfull \hbox (60.78088pt too wide) in paragraph at lines 5025--5025 [] \T1/pcr/m/n/10 compression = c("none", "rle", "lzw", "jpeg", "zip", "lz w+p", "zip+p"),[] [839] [840] Underfull \hbox (badness 1348) in paragraph at lines 5231--5234 []\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 [841] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5255--5255 []\T1/pcr/m/n/9 ## Not run: dev.print(png, file = "myplot.png", width = 1024, height = 768)[] Underfull \hbox (badness 7522) in paragraph at lines 5296--5302 []\T1/ptm/m/n/10 For use with []\T1/pcr/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a []\T1/pcr/m/n/10 printf []\T1/ptm/m/n/10 for-mat such as [842] Underfull \hbox (badness 1112) in paragraph at lines 5329--5333 []\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" [843] [844] Underfull \hbox (badness 1755) in paragraph at lines 5473--5475 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [845] [846] Underfull \hbox (badness 7344) in paragraph at lines 5653--5655 []\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 5664--5668 [][][]\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 [847] [848] Underfull \hbox (badness 1552) in paragraph at lines 5791--5800 []\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 5791--5800 []\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 5791--5800 []\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 5801--5803 []\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 5833--5839 []\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 [849] Underfull \hbox (badness 5388) in paragraph at lines 5859--5861 []\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 / [850] [851] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5963--5963 []\T1/pcr/m/n/9 ## time ranges in diverse scales:% also in ../../../../tests/r eg-tests-1c.R[] [852] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6075--6075 []\T1/pcr/m/n/10 quartz.save(file, type = "png", device = dev.cur(), dpi = 100 , ...)[] [853] [854] Underfull \hbox (badness 10000) in paragraph at lines 6162--6164 []\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 [855] [856] [857] [858] [859] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6529--6529 []\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 6543--6546 []\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 [860] [861] [862] [863] [864] [865] Overfull \hbox (0.78088pt too wide) in paragraph at lines 6878--6878 []\T1/pcr/m/n/10 windows(width, height, pointsize, record, rescale, xpinch, yp inch, Overfull \hbox (0.78088pt too wide) in paragraph at lines 6885--6885 []\T1/pcr/m/n/10 win.metafile(filename = "", width = 7, height = 7, pointsize = 12,[] [866] [867] [868] [869] Underfull \hbox (badness 10000) in paragraph at lines 7151--7156 []\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 7151--7156 []\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 7151--7156 []\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 [870] Overfull \hbox (36.7804pt too wide) in paragraph at lines 7257--7257 []\T1/pcr/m/n/9 windows() # make sure we have the right device type (availabl e on Windows only)[] [871] Underfull \hbox (badness 3590) in paragraph at lines 7296--7299 []\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 7296--7299 \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 7307--7307 [] \T1/pcr/m/n/10 fonts, family, xpos, ypos, title, type, antialias, symbol family)[] [872] Underfull \hbox (badness 1189) in paragraph at lines 7372--7374 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [873] Underfull \hbox (badness 10000) in paragraph at lines 7477--7479 []\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [874] Underfull \hbox (badness 10000) in paragraph at lines 7523--7530 []\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 7523--7530 []\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 [875] Underfull \hbox (badness 5607) in paragraph at lines 7607--7611 []\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 [876] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7659--7659 [] \T1/pcr/m/n/9 function(...) grDevices::X11.options(width = 8, height = 6, xpos = 0,[] [877] [878] Underfull \hbox (badness 5637) in paragraph at lines 7791--7797 []\T1/pcr/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Helvetica" []\T1 /ptm/m/n/10 (the de-fault), []\T1/pcr/m/n/10 "Helvetica-Narrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1721) in paragraph at lines 7824--7827 []\T1/ptm/m/n/10 Windows users can make use of Win-FIG ([][]$\T1/pcr/m/n/10 htt p : / / www . schmidt-[]web-[]berlin . de / [879] [880] Overfull \hbox (63.78036pt too wide) in paragraph at lines 7959--7959 []\T1/pcr/m/n/9 op <- options(warn = 2)# ==> warnings would be errors, we supp ress the one "we know":[] [881] Underfull \hbox (badness 1231) in paragraph at lines 7998--8000 []\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 [882] [883]) (./graphics-pkg.tex [884] Chapter 5. Underfull \hbox (badness 4647) in paragraph at lines 16--18 []\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 = [885] [886] [887] [888] [889] [890] [891] Overfull \hbox (6.05087pt too wide) in paragraph at lines 450--450 [] \T1/pcr/m/n/10 gap.axis <- if(perpendicular(side, las)) 0.25 else 1[] Underfull \hbox (badness 4048) in paragraph at lines 482--488 []\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 [892] [893] Overfull \hbox (47.58038pt too wide) in paragraph at lines 580--580 []\T1/pcr/m/n/9 ## now shrink the window (in x- and y-direction) and observe t he axis labels drawn[] [894] Overfull \hbox (15.18042pt too wide) in paragraph at lines 692--692 []\T1/pcr/m/n/9 axis.Date(3, at = as.integer(as.Date("2023-04-01")), col.axis = "darkgreen")[] [895] Overfull \hbox (15.18042pt too wide) in paragraph at lines 707--707 []\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 712--712 []\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 713--713 [] \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 719--719 []\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 746--750 []\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 746--750 [][][]\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 [896] [897] Overfull \hbox (4.38043pt too wide) in paragraph at lines 833--833 [] \T1/pcr/m/n/9 axp = c(get_axp(usr.i), n = 3), log = TRUE, n intLog = 5))[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 870--870 [] \T1/pcr/m/n/10 add = FALSE, ann = !add && par("ann"), args.legend = NULL, ...)[] [898] [899] Underfull \hbox (badness 10000) in paragraph at lines 1017--1021 [][][]\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. [900] Overfull \hbox (133.98029pt too wide) in paragraph at lines 1034--1034 [] \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 1036--1036 []\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 1038--1038 []\T1/pcr/m/n/9 mosaicplot(xt[,,"Male"], main = "mosaicplot(Freq ~ Class + Sur vived, *)", color=TRUE)[] Underfull \vbox (badness 10000) has occurred while \output is active [901] [902] [903] [904] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1322--1322 []\T1/pcr/m/n/9 # *add* notches (somewhat funny here <--> warning "notches .. outside hinges"):[] [905] [906] [907] Underfull \hbox (badness 2503) in paragraph at lines 1484--1493 \T1/ptm/m/n/10 when []\T1/pcr/m/n/10 horizontal []\T1/ptm/m/n/10 is false, and []\T1/pcr/m/n/10 xlim []\T1/ptm/m/n/10 hor-i-zon-tally. []\T1/pcr/m/n/10 xaxt[] \T1/ptm/m/n/10 , []\T1/pcr/m/n/10 yaxt[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3375) in paragraph at lines 1519--1521 []\T1/ptm/m/n/10 whisker line type (de-fault: []\T1/pcr/m/n/10 "dashed"[]\T1/pt m/m/n/10 ), [908] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1593--1593 []\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 1594--1594 []\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 1600--1600 []\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 1601--1601 [] \T1/pcr/m/n/9 medlwd = 3, medcol = "white", whisklty = 3, outl ty = 1, outpch = NA)[] [909] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1634--1634 [] \T1/pcr/m/n/10 yaxlabels = NULL, xlim = NULL, ylim = c(0, 1), weights = NU LL, ...)[] [910] [911] [912] [913] Underfull \hbox (badness 10000) in paragraph at lines 1907--1913 [][][]\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 [914] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1927--1927 []\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 1939--1939 []\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 1955--1955 []\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 1964--1964 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = "" , ylab = "")[] [915] [916] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2049--2049 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col umns, [917] [918] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2178--2178 []\T1/pcr/m/n/9 coplot(lat ~ long | depth, data = quakes, given.values = given .depth, rows = 1)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2183--2183 []\T1/pcr/m/n/9 coplot(ll.dm, data = quakes, number = c(4, 7), show.given = c( TRUE, FALSE))[] [919] [920] Overfull \hbox (18.78088pt too wide) in paragraph at lines 2357--2357 []\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 2358--2358 [] \T1/pcr/m/n/10 ann = par("ann"), xaxt = par("xaxt"), frame.plot = T RUE, log = "",[] [921] Underfull \hbox (badness 1430) in paragraph at lines 2388--2390 []\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 [922] Overfull \hbox (78.78088pt too wide) in paragraph at lines 2469--2469 [] \T1/pcr/m/n/10 color.palette = function(n) hcl.colors(n, "YlO rRd", rev = TRUE),[] Underfull \hbox (badness 1009) in paragraph at lines 2481--2488 \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 [923] Underfull \hbox (badness 7273) in paragraph at lines 2563--2567 [][][]\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 [924] [925] [926] [927] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2811--2811 []\T1/pcr/m/n/9 ## maybe change the desired number of tick marks: par(lab = c (mx, my, 7))[] [928] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2848--2848 [] \T1/pcr/m/n/10 density = NULL, angle = 45, col = "lightgray", border = NULL,[] [929] [930] Underfull \hbox (badness 1226) in paragraph at lines 2975--2979 \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 [931] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3028--3028 []\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 3032--3032 []\T1/pcr/m/n/9 length(hh$breaks) ## typically 1 million -- though 1e6 was "a suggestion only"[] [932] Underfull \hbox (badness 10000) in paragraph at lines 3094--3097 [][][]\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 Overfull \hbox (15.18042pt too wide) in paragraph at lines 3145--3145 []\T1/pcr/m/n/9 ## The default fuzz in hist.default() "kills" this, with a "w rong" message:[] [933] [934] [935] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3309--3309 []\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 3314--3314 [] \T1/pcr/m/n/9 ans <- identify(x[!sel], y[!sel], labels = which(!sel) , n = 1, plot = plot, ...)[] [936] [937] Underfull \hbox (badness 10000) in paragraph at lines 3456--3461 []\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 3456--3461 [][][]\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 3456--3461 [][][]\T1/pcr/m/n/10 dev.capabilities[][][]("rasterImage")$rasterImage []\T1/pt m/m/n/10 is []\T1/pcr/m/n/10 "yes" []\T1/ptm/m/n/10 or it is Overfull \hbox (31.3804pt too wide) in paragraph at lines 3491--3491 []\T1/pcr/m/n/9 # Visualize as matrix. Need to transpose matrix and then flip it horizontally:[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3493--3493 []\T1/pcr/m/n/9 imageM <- function(m, grid = max(dim(m)) <= 25, asp = (nrow(m) -1)/(ncol(m)-1), ...) {[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 3496--3496 [] \T1/pcr/m/n/9 axis(side, at=at, labels=as.character(j+1L), col="gray ", col.axis=1, ...)[] [938] [939] [940] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3653--3653 []\T1/pcr/m/n/9 barplot(yhist$counts, axes = FALSE, xlim = c(0, top), space = 0, horiz = TRUE)[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3672--3672 [] \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 3676--3676 [] \T1/pcr/m/n/10 text.font = NULL, merge = do.lines && has.pch, trace = FALSE,[] [941] [942] [943] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3861--3861 [] \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 3862--3862 [] \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 3866--3866 [] \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 3876--3876 [] \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)",[] [944] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3907--3907 [] \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 3933--3933 []\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 3935--3935 []\T1/pcr/m/n/9 legend("topright", rownames(VADeaths), fill = gray.colors(nrow (VADeaths)))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3946--3946 []\T1/pcr/m/n/9 legend("bottomright", paste("sin(", 1:7, "pi * x)"), col = 1:7 , lty = 1:7,[] Underfull \vbox (badness 10000) has occurred while \output is active [945] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3961--3961 []\T1/pcr/m/n/9 legend(.4,1, "sin(c x)", pch = 21, pt.bg = "white", lty = 1, c ol = "blue")[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 3969--3969 []\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 3971--3971 []\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 3979--3979 [] \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 3989--3989 []\T1/pcr/m/n/9 legend("bottomleft", c("This legend", "has", "optimally sized" , "columns."),[] [946] Underfull \hbox (badness 10000) in paragraph at lines 4051--4055 [][][]\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% [947] [948] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4163--4163 [] \T1/pcr/m/n/10 log = "", ..., add = FALSE, verbose = getOption("verb ose"))[] [949] [950] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4317--4317 []\T1/pcr/m/n/9 nd <- length(dv <- seq(as.Date("1959-02-21"), by = "weeks", le ngth.out = 100))[] [951] Underfull \hbox (badness 3930) in paragraph at lines 4396--4398 []\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 [952] [953] [954] [955] [956] Underfull \hbox (badness 1286) in paragraph at lines 4707--4710 []\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 4715--4720 []\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 [957] [958] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4811--4811 []\T1/pcr/m/n/9 pairs(USJudgeRatings, lower.panel = panel.smooth, upper.panel = panel.cor,[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4816--4816 [] \T1/pcr/m/n/9 main = "Lengths and Widths in [log]", line.main=1.5, oma =c(2,2,3,2))[] [959] Underfull \hbox (badness 1264) in paragraph at lines 5007--5020 \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 , [960] [961] [962] [963] Underfull \hbox (badness 10000) in paragraph at lines 5273--5276 [964 ] Underfull \hbox (badness 10000) in paragraph at lines 5334--5336 [965 ] [966] [967] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5580--5580 []\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 5581--5581 [] \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 [968] [969] [970] [971] [972] [973] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5945--5945 []\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 5946--5946 [] \T1/pcr/m/n/9 init.angle = 315, col = c("deepskyblue", "yellow", "yellow 3"), border = FALSE)[] [974]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot }) has been already used, duplicate ignored \relax l.6005 \aliasA{plot}{plot.default}{plot} [975] [976] [977] [978] [979] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6337--6337 []\T1/pcr/m/n/9 plot(weight ~ group, data = PlantGrowth) # numeric v ector ~ factor[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6343--6343 []\T1/pcr/m/n/9 plot(PlantGrowth$group, axes = FALSE, main = "no axes") # ext remely silly[] [980] [981] Overfull \hbox (66.78088pt too wide) in paragraph at lines 6467--6467 [] \T1/pcr/m/n/10 main = paste("Histogram of", paste(x$xname, co llapse = "\n")),[] [982] [983] [984] [985] Underfull \hbox (badness 10000) in paragraph at lines 6772--6774 []\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see [986] [987] Underfull \hbox (badness 1028) in paragraph at lines 6866--6868 []\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 Overfull \hbox (31.57222pt too wide) in paragraph at lines 6909--6910 [][] [988 ] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7003--7003 []\T1/pcr/m/n/9 plot(x, sin(x), type = "o", pch = 21, bg = par("bg"), col = "b lue", cex = .6,[] [989] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7034--7034 [] \T1/pcr/m/n/9 plot(rx, ry, type = "n", axes = FALSE, xlab = "", ylab = "", main = main)[] Underfull \vbox (badness 10000) has occurred while \output is active [990] [991] Underfull \hbox (badness 10000) in paragraph at lines 7156--7158 []\T1/ptm/m/n/10 The code im-ple-ment-ing poly-gon shad-ing was do-nated by Kev in Buhr Overfull \hbox (15.18042pt too wide) in paragraph at lines 7183--7183 [] \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 7189--7189 []\T1/pcr/m/n/9 yy <- c(c(0, cumsum(stats::rnorm(n))), rev(c(0, cumsum(stats:: rnorm(n)))))[] [992] Underfull \hbox (badness 2600) in paragraph at lines 7246--7248 []\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 [993] [994] [995] [996] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7478--7478 []\T1/pcr/m/n/9 rect(100+i, 300+i, 150+i, 380+i, col = rainbow(11, start = 0.7 , end = 0.1))[] [997] [998] [999] [1000] [1001] [1002] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7865--7865 []\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 7869--7869 []\T1/pcr/m/n/9 ## label the 20 very lowest-density points,the "outliers" (wit h obs.number):[] [1003] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7881--7881 []\T1/pcr/m/n/9 pairs(y, panel = function(...) smoothScatter(..., nrpoints = 0 , add = TRUE),[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 7908--7908 [] \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 7917--7917 [] \T1/pcr/m/n/10 subset = NULL, weights = NULL, drop.unused.levels = FALSE)[] [1004] [1005] [1006] [1007] [1008] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8234--8234 []\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 8237--8237 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi us = FALSE,[] [1009] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8241--8241 [] \T1/pcr/m/n/9 draw.segments = TRUE, col.segments = 0, col.stars = 1:10 , key.loc = 0:1,[] [1010] [1011] Overfull \hbox (30.78088pt too wide) in paragraph at lines 8412--8412 []\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 8413--8413 []\T1/pcr/m/n/10 strheight(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...)[] [1012] [1013] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8517--8517 []\T1/pcr/m/n/10 sunflowerplot(formula, data = NULL, xlab = NULL, ylab = NULL, ...,[] [1014] Underfull \hbox (badness 1112) in paragraph at lines 8576--8580 []\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 [1015] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8636--8636 []\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 8651--8651 []\T1/pcr/m/n/9 sunflowerplot(rnorm(100), rnorm(100), number = rpois(n = 100, lambda = 2),[] [1016] [1017] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8788--8788 []\T1/pcr/m/n/9 text(x, y, apply(format(round(z3, digits = 2)), 1, paste, coll apse = ","),[] [1018] [1019] [1020] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8973--8973 [] \T1/pcr/m/n/9 "Le français, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est façile: Règles, Liberté, Egalité, Fraternité...")[] Underfull \hbox (badness 1215) in paragraph at lines 9001--9003 []\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", Underfull \hbox (badness 1584) in paragraph at lines 9035--9041 []\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 [1021]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9083 \HeaderA{units}{Graphical Units}{units} pdfTeX warning (ext4): destinatio n with the same identifier (name{Rfn.units.1}) has been already used, duplicate ignored \relax l.9083 \HeaderA{units}{Graphical Units}{units} [1022] Underfull \hbox (badness 1205) in paragraph at lines 9148--9150 []\T1/ptm/m/n/10 vectors con-tain-ing the co-or-di-nates of the ver-tices of th e poly-gon. See [1023] [1024] Overfull \hbox (25.98041pt too wide) in paragraph at lines 9267--9267 []\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)[] [1025]) (./grid-pkg.tex [1026] Chapter 6. [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] Underfull \hbox (badness 4859) in paragraph at lines 634--637 []\T1/ptm/m/n/10 Modification of the view-port (should all be valid ar-gu-ments to the [1037] [1038] [1039] [1040] [1041] [1042] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1028--1028 [] \T1/pcr/m/n/9 width=unit(1, "inches"), height=un it(1, "inches")))[] [1043] [1044] [1045] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1239--1239 [] \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 1240--1240 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="B"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1241--1241 [] \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 1242--1242 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="C"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1243--1243 [] \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 1244--1244 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="D")),[] [1046] [1047] [1048] [1049] Underfull \hbox (badness 3219) in paragraph at lines 1503--1506 []\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 [1050] [1051] [1052] [1053] [1054] [1055] [1056] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1891--1891 [] \T1/pcr/m/n/9 do.call("grid.curve", c(list(x1=.25, y1=.25, x2=.75, y2=.75) , list(...)))[] [1057] [1058] [1059] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2105--2105 []\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 2106--2106 []\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 2107--2107 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.75, y=.25, gp=gpar(fill="whi te"), name="r3")[] [1060] Underfull \hbox (badness 2961) in paragraph at lines 2142--2147 []\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 , [1061] Underfull \hbox (badness 4479) in paragraph at lines 2230--2233 []\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 [1062] [1063] [1064] Underfull \hbox (badness 2894) in paragraph at lines 2437--2444 []\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 [1065] [1066] [1067] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2593--2593 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = FALSE)[] [1068] Underfull \hbox (badness 1014) in paragraph at lines 2679--2684 []\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 [1069] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2725--2725 []\T1/pcr/m/n/10 grid.grabExpr(expr, warn = 2, wrap = wrap.grobs, wrap.grobs = FALSE,[] [1070] [1071] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2887--2887 [] \T1/pcr/m/n/9 children=gList(grob(name="child", vp ="vp1::vp2")),[] [1072] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2919--2919 [] \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp = NULL)[] [1073] [1074] Underfull \hbox (badness 10000) in paragraph at lines 3102--3104 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1075] Underfull \hbox (badness 1077) in paragraph at lines 3119--3138 []\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 3119--3138 []\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 3119--3138 []\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 , [1076] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3191--3191 [] \T1/pcr/m/n/9 mask <- as.mask(rectGrob(gp=gpar(col=NA, fill="grey50")), ty pe="luminance")[] [1077] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3307--3307 [] \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1 , "inches"),[] [1078] [1079] [1080] [1081] [1082] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3622--3622 [] \T1/pcr/m/n/9 children=vpList(viewpor t(name="vp2"))))[] [1083] [1084] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3718--3718 []\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 3755--3761 []\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 [1085] [1086] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3847--3847 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3854--3854 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] [1087] [1088] [1089] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4055--4055 [] \T1/pcr/m/n/9 "Nested rectangles, outer clockwise, inner ant i-clockwise")[] [1090] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4070--4070 [] \T1/pcr/m/n/9 "Overlapping rectangles, one clockwise, other anti-clockwise")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4091--4091 []\T1/pcr/m/n/9 # Not specifying pathId will treat all points as part of the s ame path, thus[] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] Underfull \hbox (badness 1067) in paragraph at lines 4840--4843 []\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 [1103] [1104] [1105] [1106] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5056--5056 [] \T1/pcr/m/n/9 width=unit(1, "inches"), height=un it(1, "inches")))[] [1107] [1108] Underfull \hbox (badness 7256) in paragraph at lines 5191--5193 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1109] Overfull \hbox (69.18036pt too wide) in paragraph at lines 5258--5258 []\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),[] [1110] [1111] [1112] [1113] [1114] [1115] Underfull \hbox (badness 2726) in paragraph at lines 5645--5649 []\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 5645--5649 \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 [1116] Underfull \hbox (badness 2080) in paragraph at lines 5727--5732 []\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 [1117] [1118] [1119] Underfull \hbox (badness 10000) in paragraph at lines 5907--5909 []\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 [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7002--7002 []\T1/pcr/m/n/9 unitType(min(unit(1, "in"), unit(1, "npc") + unit(1, "mm")), r ecurse=TRUE)[] [1137] [1138] Overfull \hbox (54.78088pt too wide) in paragraph at lines 7122--7122 []\T1/pcr/m/n/10 viewportTransform(group, shear=groupShear(), flip=groupFlip() , device=TRUE) [1139] Underfull \hbox (badness 1867) in paragraph at lines 7224--7226 []\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 [1140] Underfull \hbox (badness 10000) in paragraph at lines 7261--7267 [][][]\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 , [1141] [1142] [1143] Underfull \vbox (badness 10000) has occurred while \output is active [1144] [1145] [1146] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7597--7597 []\T1/pcr/m/n/9 invisible(lapply(trace, function(t) grid.lines(t$x, t$y, gp=gp ar(col="red"))))[] [1147]) (./methods-pkg.tex [1148] Chapter 7. [1149] [1150] Underfull \hbox (badness 1688) in paragraph at lines 166--171 []\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 [1151] [1152] [1153] Underfull \hbox (badness 1348) in paragraph at lines 392--395 [][][]\T1/pcr/m/n/10 GroupGenericFunctions[][][] []\T1/ptm/m/n/10 for other in- for-ma-tion about group generic func-tions; [][]Meth- [1154] [1155] Overfull \hbox (15.18042pt too wide) in paragraph at lines 558--558 []\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 568--568 []\T1/pcr/m/n/9 ## For arithmetic and one rnum with anything, callNextMethod w ith no arguments[] [1156] Overfull \hbox (4.38043pt too wide) in paragraph at lines 619--619 []\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 [1157] Overfull \hbox (25.98041pt too wide) in paragraph at lines 637--637 []\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 640--640 []\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 657--657 []\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 672--672 []\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 [1158] [1159] [1160] [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1794--1794 []\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 1796--1796 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i, TRUE), c(1:10, 1+1i, TRUE)) ) # the default[] [1173] [1174] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\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 [1175] [1176] [1177] Underfull \hbox (badness 1478) in paragraph at lines 2213--2218 []\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 = [1178] [1179] Underfull \hbox (badness 10000) in paragraph at lines 2327--2331 []\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 [1180] [1181] [1182] Underfull \hbox (badness 3792) in paragraph at lines 2573--2576 []\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 Underfull \hbox (badness 1194) in paragraph at lines 2604--2608 []\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 [1183] Overfull \hbox (24.78088pt too wide) in paragraph at lines 2660--2660 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin g(where))[] [1184] [1185] [1186] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2879--2879 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers ions visible:[] [1187] [1188] [1189] [1190] [1191] [1192] [1193] Underfull \hbox (badness 10000) in paragraph at lines 3402--3407 []\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 3402--3407 []\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 [1194] [1195] Underfull \hbox (badness 10000) in paragraph at lines 3530--3534 []\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 [1196] Overfull \hbox (14.78088pt too wide) in paragraph at lines 3641--3650 [] [1197] [1198] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/pcr/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = Underfull \hbox (badness 10000) in paragraph at lines 3808--3809 []\T1/pcr/m/n/10 setMethod("plot", c("Pos", "missing"), function(x, y, ...) { [1199] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/pcr/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , Underfull \hbox (badness 6157) in paragraph at lines 3907--3911 []\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 [1200] [1201] [1202] [1203] [1204] [1205] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4312--4312 []\T1/pcr/m/n/10 makeClassRepresentation(name, slots=list(), superClasses=char acter(), Overfull \hbox (0.78088pt too wide) in paragraph at lines 4313--4313 [] \T1/pcr/m/n/10 prototype=NULL, package, validity, ac cess,[] [1206] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4370--4370 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w here) [1207] [1208] [1209] Underfull \hbox (badness 2126) in paragraph at lines 4578--4586 []\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 , [1210] [1211] [1212] Underfull \hbox (badness 10000) in paragraph at lines 4815--4824 []\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 [1213] [1214] [1215] [1216] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5203--5203 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate inheritance[] [1217] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5231--5231 []\T1/pcr/m/n/9 stopifnot(identical(abs(y), abs(x))) # (version 2.9.0 or earli er fails here)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5245--5245 []\T1/pcr/m/n/9 ## The S3 method for classA and the closest inherited S3 metho d for classB[] Underfull \vbox (badness 10000) has occurred while \output is active [1218] [1219] Underfull \hbox (badness 10000) in paragraph at lines 5363--5364 []\T1/pcr/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...) [1220] [1221] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1222] [1223] [1224] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\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 [1225] [1226] [1227] [1228] [1229] [1230] Underfull \hbox (badness 10000) in paragraph at lines 6218--6234 []\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 [1231] [1232] Underfull \hbox (badness 1248) in paragraph at lines 6351--6355 []\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 6351--6355 \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 [1233] Underfull \hbox (badness 4647) in paragraph at lines 6506--6508 []\T1/ptm/m/n/10 This method is equiv-a-lent to call-ing the gen-er-a-tor func- tion re-turned by [1234] [1235] Underfull \hbox (badness 2875) in paragraph at lines 6655--6664 []\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 6655--6664 [][][]\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 [1236] Underfull \vbox (badness 10000) has occurred while \output is active [1237] [1238] [1239]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1240] Overfull \hbox (66.78088pt too wide) in paragraph at lines 7017--7017 []\T1/pcr/m/n/10 ## Create a new object from the class or use the replacement version of as().[] [1241] [1242] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7208--7208 []\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 7212--7212 []\T1/pcr/m/n/9 myReg <- setClass("myReg", slots = c(title = "character"), con tains = "mlm")[] [1243]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Com plex}) has been already used, duplicate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\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 [1244] Underfull \hbox (badness 6708) in paragraph at lines 7317--7329 []\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 7317--7329 []\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 7317--7329 []\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 , [1245] [1246] Underfull \hbox (badness 1694) in paragraph at lines 7480--7482 []\T1/ptm/m/n/10 name of the class or (more ef-fi-ciently) the class def-i-ni-t ion ob-ject (see Underfull \hbox (badness 10000) in paragraph at lines 7504--7507 []\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 [1247] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7525--7525 []\T1/pcr/m/n/9 selectSuperClasses("C", dropVirtual=TRUE, directOnly=FALSE)# d itto w/o "Root"[] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8630--8630 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact er(), [1261] Overfull \hbox (6.78088pt too wide) in paragraph at lines 8705--8705 [] \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class Def =,[] [1262] [1263] [1264] [1265] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8967--8967 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col umn matrices[] [1266] [1267] [1268] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9175--9175 [] \T1/pcr/m/n/9 setLoadAction(function(ns) assign("myCount", 0, envir = ns), "setCount")[] [1269] [1270] [1271] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9437--9437 []\T1/pcr/m/n/9 ## Using a short form for the signature, which matches like fo rmal arguments[] [1272] [1273] [1274] [1275] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9745--9745 []\T1/pcr/m/n/9 ## Define a new generic function to compute the residual degre es of freedom[] [1276] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9855--9855 []\T1/pcr/m/n/9 ## Not run: [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1 0] [,11] [,12][] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9866--9866 []\T1/pcr/m/n/9 ## Not run: [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1 0] [,11] [,12][] [1277] [1278] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] Underfull \hbox (badness 10000) in paragraph at lines 10564--10566 []\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 10572--10576 []\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 10572--10576 []\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 [1287] [1288] [1289]) (./parallel-pkg.tex [1290] 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 [1291] Underfull \hbox (badness 4242) in paragraph at lines 97--99 []\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 [1292] [1293] Underfull \hbox (badness 1024) in paragraph at lines 214--217 []\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 [1294] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1295] [1296] Underfull \hbox (badness 10000) in paragraph at lines 437--439 []\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 [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 1917) in paragraph at lines 771--780 []\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 771--780 []\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 [1302] Overfull \hbox (60.78088pt too wide) in paragraph at lines 864--864 [] \T1/pcr/m/n/10 mc.cleanup = TRUE, mc.allow.recursive = TRUE, affini ty.list = NULL)[] [1303] [1304] [1305] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1055--1055 []\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 1059--1059 []\T1/pcr/m/n/9 # To optimize the overall execution time elements of X are sch eduled to suitable CPUs[] [1306] [1307] Underfull \hbox (badness 5388) in paragraph at lines 1174--1179 []\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 Underfull \hbox (badness 10000) in paragraph at lines 1198--1206 []\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 [1308] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1235--1235 []\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)[] [1309] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1351--1351 [] \T1/pcr/m/n/9 as.integer(runif(N, 1, 12)), as.integer(runif (N, 1, 28)))[] [1310] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1365--1365 []\T1/pcr/m/n/9 system.time(c <- unlist(mclapply(dates, as.POSIXct, format = "%Y-%m-%d")))[] Underfull \hbox (badness 1577) in paragraph at lines 1394--1397 []\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 [1311] Underfull \hbox (badness 3375) in paragraph at lines 1441--1443 []\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 [1312] [1313]) (./splines-pkg.tex [1314] 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 [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] Overfull \hbox (4.38043pt too wide) in paragraph at lines 499--499 []\T1/pcr/m/n/9 ispl <- polySpline(interpSpline( weight ~ height, women, bSpl ine = TRUE))[] [1323] Underfull \hbox (badness 1043) in paragraph at lines 600--602 []\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 [1324] [1325] Overfull \hbox (25.98041pt too wide) in paragraph at lines 715--715 []\T1/pcr/m/n/9 Matrix::drop0(zapsmall(6*splineDesign(knots = 1:40, x = 4:37, sparse = TRUE)))[] [1326] [1327] [1328]) (./stats-pkg.tex Chapter 10. [1329] 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[] [1330] [1331] [1332] [1333] [1334] 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[] [1335] 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) [1336] [1337] [1338] [1339] [1340] [1341] Underfull \hbox (badness 1024) in paragraph at lines 887--889 []\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 [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1626--1626 [] \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 1629--1629 [] \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm = TRUE)[] [1353] [1354] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1776--1776 [] \T1/pcr/m/n/9 approx(xn, yn, xout=xout, method=M, rule=R, n a.rm=na.)$y),[] [1355] Overfull \hbox (47.58038pt too wide) in paragraph at lines 1788--1788 []\T1/pcr/m/n/9 (amy <- approx(x, y, xout = x)$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 :[ ] [1356] [1357] [1358] [1359] [1360] [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2806--2806 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(), ma = numeric(), lag.max = r, pacf = F ALSE) [1370] [1371] [1372] [1373] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3054--3054 []\T1/pcr/m/n/9 lines(ave(breaks, wool, tension, FUN = median), type = "s", co l = "green")[] [1374] [1375] [1376] Underfull \hbox (badness 10000) in paragraph at lines 3265--3267 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Bartlett test of homo geneity of [1377] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3314--3314 []\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 3315--3315 []\T1/pcr/m/n/10 qbeta(p, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] [1378] [1379] [1380] [1381] Package amsmath Warning: Foreign command \atopwithdelims; (amsmath) \frac or \genfrac should be used instead (amsmath) on input line 3644. [1382] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3710--3710 []\T1/pcr/m/n/9 plot (k, dbinom(k, n, pi/10, log = TRUE), type = "l", ylab = " log density",[] [1383] [1384] [1385] [1386] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3989--3989 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit df = 0) [1387] [1388] [1389] [1390] [1391] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4278--4278 []\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 4279--4279 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1392] [1393] [1394] [1395] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4520--4520 []\T1/pcr/m/n/9 chisq.test(x, p = p) # maybe doubtful , but is ok![] [1396] [1397] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4695--4695 [] \T1/pcr/m/n/9 plot(pp, sort(pchisq(rr <- rchisq(n, df = df, ncp = L), df = df, ncp = L)),[] [1398] [1399] Underfull \hbox (badness 3989) in paragraph at lines 4789--4796 []\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 = [1400] [1401] [1402] [1403] [1404] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5178--5178 []\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 5180--5180 []\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))[] [1405] [1406] [1407] [1408] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5402--5402 []\T1/pcr/m/n/9 ## using sparse contrasts: % useful, once model.matrix() works with these :[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5420--5420 []\T1/pcr/m/n/10 convolve(x, y, conj = TRUE, type = c("circular", "open", "fil ter")) [1409] [1410] [1411] Underfull \hbox (badness 1436) in paragraph at lines 5630--5635 []\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 5630--5635 \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 5630--5635 \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 , [1412] [1413] Underfull \vbox (badness 10000) has occurred while \output is active [1414] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5833--5833 [] \T1/pcr/m/n/10 exact = NULL, conf.level = 0.95, continuity = FALSE, ...)[] [1415] [1416] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6000--6000 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center = TRUE, [1417] [1418] [1419] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6185--6185 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter = NULL) [1420] [1421] Overfull \hbox (84.78088pt too wide) in paragraph at lines 6293--6293 []\T1/pcr/m/n/10 reformulate(termlabels, response = NULL, intercept = TRUE, en v = parent.frame())[] [1422] [1423] [1424] [1425] Underfull \hbox (badness 5954) in paragraph at lines 6556--6558 []\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn , see [1426] Underfull \hbox (badness 2503) in paragraph at lines 6638--6641 []\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 6642--6644 []\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 6645--6650 \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, [1427] Underfull \hbox (badness 7238) in paragraph at lines 6681--6684 [][][]\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 6693--6693 []\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 6716--6716 []\T1/pcr/m/n/9 plot(dend2$lower[[3]], nodePar = list(col = 4), horiz = TRUE, type = "tr")[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6731--6731 []\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):[] [1428] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6746--6746 []\T1/pcr/m/n/9 plot(d3, nodePar= nP, edgePar = list(col = "gray", lwd = 2), h oriz = TRUE)[] [1429] [1430] [1431] Underfull \vbox (badness 10000) has occurred while \output is active [1432] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7014--7014 [] \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker n = TRUE))))[] [1433] [1434] Underfull \vbox (badness 10000) has occurred while \output is active [1435] [1436] [1437] [1438] Underfull \hbox (badness 10000) in paragraph at lines 7414--7418 []\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 [1439] Underfull \hbox (badness 6493) in paragraph at lines 7517--7520 []\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 [1440] [1441] Underfull \hbox (badness 10000) in paragraph at lines 7654--7657 []\T1/ptm/m/n/10 The CRAN task view on dis-tri-bu-tions, [][]$\T1/pcr/m/n/10 ht tps : / / CRAN . R-[]project . org / view = [1442] [1443] [1444] [1445] [1446] [1447] Underfull \hbox (badness 10000) in paragraph at lines 8066--8071 []\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 , ..., [1448] [1449] [1450] [1451] [1452] [1453] Underfull \hbox (badness 1210) in paragraph at lines 8421--8423 []\T1/ptm/m/n/10 Components of []\T1/pcr/m/n/10 control []\T1/ptm/m/n/10 can al so be sup-plied as named ar-gu-ments to [1454] [1455] [1456] [1457] [1458] [1459] Overfull \hbox (15.18042pt too wide) in paragraph at lines 8887--8887 []\T1/pcr/m/n/9 glm.qD93 <- glm(counts ~ outcome + treatment, d.AD, family = q uasipoisson())[] [1460] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8932--8932 []\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 8935--8935 []\T1/pcr/m/n/9 glm(y ~ x, family = quasi(variance = "mu(1-mu)", link = "logit "), start = c(0,1))[] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9515--9515 [] \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 9516--9516 [] \T1/pcr/m/n/9 satisfaction = c("VeryD", "LittleD", "Mod erateS", "VeryS")))[] [1469] [1470] [1471] Underfull \hbox (badness 7291) in paragraph at lines 9695--9697 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Fligner-Killeen test of homogeneity of [1472] [1473] [1474] [1475] [1476] [1477] [1478] Underfull \hbox (badness 6944) in paragraph at lines 10187--10193 [][][]\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 ); [1479] [1480] [1481] Underfull \hbox (badness 3758) in paragraph at lines 10401--10404 []\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 [1482] [1483] [1484] [1485] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10645--10645 [] \T1/pcr/m/n/10 x = FALSE, y = TRUE, singular.ok = TRUE, contrasts = NULL , ...)[] Underfull \hbox (badness 4518) in paragraph at lines 10671--10676 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1486] Underfull \hbox (badness 4132) in paragraph at lines 10710--10714 []\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 10764--10770 []\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- [1487] Underfull \hbox (badness 10000) in paragraph at lines 10815--10818 []\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 [1488] [1489] [1490] Underfull \hbox (badness 2142) in paragraph at lines 11032--11035 []\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 ^^@ [1491] Underfull \hbox (badness 1708) in paragraph at lines 11113--11117 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1492] Underfull \hbox (badness 10000) in paragraph at lines 11155--11161 [][][]\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, Underfull \hbox (badness 1418) in paragraph at lines 11193--11198 []\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 (= [1493] [1494] Underfull \hbox (badness 2635) in paragraph at lines 11326--11329 \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 [1495] [1496] [1497] Underfull \hbox (badness 1694) in paragraph at lines 11509--11512 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1498] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11607--11607 []\T1/pcr/m/n/9 heatmap(Ca, Rowv = FALSE, symm = TRUE, RowSideColors = cc, Col SideColors = cc,[] [1499] Overfull \hbox (0.78088pt too wide) in paragraph at lines 11640--11640 [] \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 11653--11657 []\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 [1500] [1501] [1502] [1503] [1504] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11975--11975 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]), col = 2:4) , DEV.FUN = nD)[] [1505]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat }) has been already used, duplicate ignored \relax l.11990 \aliasA{hat}{influence.measures}{hat} Overfull \hbox (0.78088pt too wide) in paragraph at lines 12050--12050 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA LSE),[] [1506] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12062--12062 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE), ...)[] Underfull \hbox (badness 1062) in paragraph at lines 12115--12120 []\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 12132--12134 []\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 [1507] [1508] [1509] [1510] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12387--12387 [] \T1/pcr/m/n/10 type = c("l", "p", "b", "o", "c"), legend = TRUE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12388--12388 [] \T1/pcr/m/n/10 trace.label = deparse1(substitute(trace.fact or)),[] [1511] [1512] [1513] [1514] [1515] [1516] Underfull \hbox (badness 10000) in paragraph at lines 12734--12736 []\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 = Underfull \hbox (badness 4739) in paragraph at lines 12757--12759 []\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 [1517] [1518] [1519] [1520] [1521] Underfull \hbox (badness 3417) in paragraph at lines 13064--13066 []\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 13070--13074 []\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 13070--13074 \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 [1522] [1523] [1524] [1525] [1526] [1527] Underfull \hbox (badness 1496) in paragraph at lines 13493--13499 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1528] [1529] [1530] [1531] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13742--13742 []\T1/pcr/m/n/9 lag.plot(sqrt(sunspots), set.lags = c(1:4, 9:12), pch = ".", c ol = "gold")[] [1532] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13843--13843 []\T1/pcr/m/n/9 dimnames(cAS) <- list(paste("it =", format(1:10)), c("intercep t", "slope"))[] [1533] Underfull \hbox (badness 4518) in paragraph at lines 13891--13896 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1534] [1535] [1536] Underfull \hbox (badness 10000) in paragraph at lines 14092--14096 []\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 , [1537] [1538] [1539] [1540] [1541] Underfull \hbox (badness 1163) in paragraph at lines 14431--14439 \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 , [1542] [1543] Underfull \hbox (badness 4518) in paragraph at lines 14551--14556 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1544] [1545] Overfull \hbox (12.78088pt too wide) in paragraph at lines 14739--14739 []\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 14740--14740 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1546] [1547] [1548] [1549] [1550] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15083--15083 []\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 15084--15084 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] [1551] [1552] Overfull \hbox (18.78088pt too wide) in paragraph at lines 15177--15177 []\T1/pcr/m/n/10 lowess(x, y = NULL, f = 2/3, iter = 3, delta = 0.01 * diff(ra nge(x))) [1553] [1554] [1555] [1556] [1557] [1558] Underfull \hbox (badness 2726) in paragraph at lines 15586--15589 []\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 , [1559] Overfull \hbox (4.38043pt too wide) in paragraph at lines 15680--15680 []\T1/pcr/m/n/9 stopifnot(all.equal(pfm, pf2)) ## was off (rel.diff. 0.0766) i n R <= 3.5.0[] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] Overfull \hbox (31.3804pt too wide) in paragraph at lines 16309--16309 []\T1/pcr/m/n/9 a <- model.frame(cbind(ncases,ncontrols) ~ agegp + tobgp + alc gp, data = esoph) [1570] [1571] Underfull \hbox (badness 1490) in paragraph at lines 16456--16461 \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 [1572] Underfull \hbox (badness 1648) in paragraph at lines 16524--16526 []\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, [1573] Overfull \hbox (36.7804pt too wide) in paragraph at lines 16609--16609 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts.arg = list(a = "contr.sum" , b = contr.poly))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 16610--16610 []\T1/pcr/m/n/9 m.orth <- model.matrix(~a+b, dd, contrasts.arg = list(a = "con tr.helmert"))[] [1574] [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] Overfull \hbox (9.78043pt too wide) in paragraph at lines 17167--17167 []\T1/pcr/m/n/9 stopifnot(all(na.omit(1:3) == 1:3)) # does not affect objects with no NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s[] [1583] [1584] [1585] Overfull \hbox (25.98041pt too wide) in paragraph at lines 17399--17399 []\T1/pcr/m/n/9 persp(x, size, dnb <- outer(x, size, function(x,s) dnbinom(x, s, prob = 0.4)),[] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] Underfull \vbox (badness 10000) has occurred while \output is active [1596] Overfull \hbox (42.18039pt too wide) in paragraph at lines 18121--18121 []\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:[] Underfull \vbox (badness 10000) has occurred while \output is active [1597] Overfull \hbox (74.58035pt too wide) in paragraph at lines 18139--18139 []\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 18140--18140 []\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 18144--18144 []\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 18145--18145 []\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 18148--18148 [] \T1/pcr/m/n/9 (grepl("^aarch64.*linux", R.version$platform) && grepl ("^NixOS", osVersion)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 18180--18180 [] \T1/pcr/m/n/9 start = list(a = rep(b[2], 21), b = rep(b[3], 21 ), th = b[1]))[] [1598] [1599] [1600] Overfull \hbox (9.78043pt too wide) in paragraph at lines 18356--18356 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi ty), DNase.2)[] [1601] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18403--18403 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18450--18450 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1602] [1603] [1604] [1605] Overfull \hbox (102.78088pt too wide) in paragraph at lines 18663--18663 [] \T1/pcr/m/n/10 eps = .Machine$double.eps ^ (1/if(central) 3 els e 2), central = FALSE)[] [1606] [1607] [1608] [1609] [1610] Underfull \hbox (badness 1248) in paragraph at lines 18978--18981 []\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 18991--18995 []\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 18999--19003 \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 [1611] Underfull \hbox (badness 2042) in paragraph at lines 19057--19059 []\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 [1612] Overfull \hbox (15.18042pt too wide) in paragraph at lines 19163--19163 [] \T1/pcr/m/n/9 lower = rep(2, 25), upper = rep(4, 25)) # par[24] is *no t* at boundary[] [1613] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19206--19206 [] \T1/pcr/m/n/9 main = "initial solution of traveling salesman problem", axes = FALSE)[] Overfull \hbox (123.1803pt too wide) in paragraph at lines 19224--19224 []\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 19227--19227 []\T1/pcr/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 19247--19247 []\T1/pcr/m/n/10 optimize(f, interval, ..., lower = min(interval), upper = max (interval), [1614] Overfull \hbox (36.78088pt too wide) in paragraph at lines 19250--19250 []\T1/pcr/m/n/10 optimise(f, interval, ..., lower = min(interval), upper = max (interval),[] Underfull \hbox (badness 2564) in paragraph at lines 19285--19296 []\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 19285--19296 \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 [1615] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19348--19348 []\T1/pcr/m/n/9 f <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 1)), 10), 10)[] [1616] [1617] [1618] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19575--19575 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 1, lty = 1:6,[] [1619] [1620] Underfull \hbox (badness 1337) in paragraph at lines 19686--19689 []\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 [1621] [1622] [1623] [1624] [1625] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20005--20005 [] \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 1.5),[] [1626] [1627] Overfull \hbox (24.78088pt too wide) in paragraph at lines 20093--20093 [] \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 (12.78088pt too wide) in paragraph at lines 20095--20095 [] \T1/pcr/m/n/10 panel.smooth(x, y, iter=iter.smooth, ...) else points,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 20097--20097 [] \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact ive(),[] [1628] Underfull \hbox (badness 10000) in paragraph at lines 20157--20163 \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 20157--20163 \T1/pcr/m/n/10 col = cook.col, text.col = cook.col, bty = "n", x.intersp Underfull \hbox (badness 10000) in paragraph at lines 20165--20171 []\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 20176--20179 []\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 <- [1629] [1630] [1631] [1632] [1633] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20485--20485 [] \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3, ...)[] Underfull \hbox (badness 1194) in paragraph at lines 20495--20498 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1634] Underfull \hbox (badness 1107) in paragraph at lines 20553--20555 []\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 [1635] Overfull \hbox (20.58041pt too wide) in paragraph at lines 20608--20608 []\T1/pcr/m/n/9 plot(sfun.2);plot(sfun.2, xval = tt, add = TRUE, col = "orange ") # all colors[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 20615--20615 []\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)[] [1636] [1637] Overfull \hbox (20.58041pt too wide) in paragraph at lines 20709--20709 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma r..., oma...)")[] [1638] [1639] Overfull \hbox (4.38043pt too wide) in paragraph at lines 20838--20838 [] \T1/pcr/m/n/9 ppois(10*(15:25), lambda = 100, lower.tail = FALSE) # no cancellation[] [1640] Underfull \hbox (badness 7740) in paragraph at lines 20901--20903 []\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 Overfull \hbox (6.78088pt too wide) in paragraph at lines 20949--20949 []\T1/pcr/m/n/10 poly(x, ..., degree = 1, coefs = NULL, raw = FALSE, simple = FALSE) [1641] Underfull \hbox (badness 10000) in paragraph at lines 21005--21007 []\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 [1642] Overfull \hbox (4.38043pt too wide) in paragraph at lines 21042--21042 [] \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 21047--21047 []\T1/pcr/m/n/9 ## poly(, df) --- used to fail till July 14 (vive la F rance!), 2017:[] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] Overfull \hbox (58.38037pt too wide) in paragraph at lines 21902--21902 [] \T1/pcr/m/n/9 all.equal(pz3$sdev, pZ$sdev, tolerance = 1e-15)) # e xactly equal typically[] [1656] Underfull \hbox (badness 6859) in paragraph at lines 21969--21976 [][][]\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 21980--21986 []\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 , [1657] [1658] [1659] [1660] [1661] Overfull \hbox (54.78088pt too wide) in paragraph at lines 22268--22268 [] \T1/pcr/m/n/10 rankdeficient = c("warnif", "simple", "non-estim", "N A", "NAwarn"),[] Underfull \hbox (badness 10000) in paragraph at lines 22294--22297 []\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 22294--22297 \T1/ptm/m/n/10 case of a rank de-fi-cient model, i.e., when []\T1/pcr/m/n/10 ob ject$rank < [1662] Underfull \hbox (badness 5832) in paragraph at lines 22299--22304 \T1/ptm/m/n/10 cases, i.e., vec-tors not in the same pre-dic-tor sub-space as t he Underfull \hbox (badness 8151) in paragraph at lines 22299--22304 \T1/ptm/m/n/10 orig-i-nal data (with tol-er-ance []\T1/pcr/m/n/10 tol[]\T1/ptm/ m/n/10 ). In that case, the non- Underfull \hbox (badness 1184) in paragraph at lines 22299--22304 \T1/ptm/m/n/10 estimable in-dices are also re-turned as at-tribute []\T1/pcr/m/ n/10 "non-estim" []\T1/ptm/m/n/10 (see [1663] [1664] [1665] [1666] [1667] [1668] [1669] Overfull \hbox (48.78088pt too wide) in paragraph at lines 22767--22767 [] \T1/pcr/m/n/10 subset = rep_len(TRUE, nrow(as.matrix(x))), fix_sign = TRUE, ...)[] [1670] [1671] [1672] [1673] Overfull \hbox (0.78088pt too wide) in paragraph at lines 23051--23051 [] \T1/pcr/m/n/10 has.Pvalue = nc >= 4L && length(cn <- colnames(x )) &&[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 23052--23052 [] \T1/pcr/m/n/10 substr(cn[nc], 1L, 3L) %in% c("Pr(" , "p-v"),[] [1674] [1675] [1676] [1677] [1678] Underfull \hbox (badness 1337) in paragraph at lines 23378--23384 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1679] [1680] [1681] [1682] [1683] Overfull \hbox (15.18042pt too wide) in paragraph at lines 23690--23690 []\T1/pcr/m/n/9 with(d, qqplot(Female, Male, pch = 19, xlim = c(-31, 31), ylim = c(-31, 31),[] [1684] [1685] [1686] [1687] Underfull \hbox (badness 10000) in paragraph at lines 24002--24004 []\T1/ptm/m/n/10 Wicklin, R. (2017) Sam-ple quan-tiles: A com-par-i-son of 9 de f-i-ni-tions; Underfull \hbox (badness 10000) in paragraph at lines 24002--24004 \T1/ptm/m/n/10 SAS Blog. [][]$\T1/pcr/m/n/10 https : / / blogs . sas . com / co ntent / iml / 2017 / 05 / 24 / [1688] Underfull \hbox (badness 10000) in paragraph at lines 24009--24010 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ [1689] Overfull \hbox (48.78088pt too wide) in paragraph at lines 24120--24120 [] \T1/pcr/m/n/10 method = c("non.compact", "row.compact", "col.compact" , "compact"),[] [1690] Underfull \hbox (badness 1028) in paragraph at lines 24178--24181 []\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 [1691] [1692] Underfull \hbox (badness 10000) in paragraph at lines 24293--24296 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by [1693] Underfull \hbox (badness 7099) in paragraph at lines 24348--24350 []\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 = [1694] Underfull \hbox (badness 7099) in paragraph at lines 24412--24414 []\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 24447--24447 []\T1/pcr/m/n/9 bymedianR <- with(InsectSprays, reorder(spray, count, median, decreasing=TRUE))[] [1695] [1696] Overfull \hbox (9.78043pt too wide) in paragraph at lines 24523--24523 []\T1/pcr/m/n/9 plot(reorder(dd, 10:1, agglo.FUN = mean), main = "reorder(dd, 10:1, mean)")[] [1697] [1698] Overfull \hbox (0.78088pt too wide) in paragraph at lines 24640--24640 []\T1/pcr/m/n/10 # varying = ___, # list / matrix / vector (use with care)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 24641--24641 []\T1/pcr/m/n/10 # v.names = ___, # vector of variable names in long format[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 24642--24642 []\T1/pcr/m/n/10 # timevar, times, # name / values of constructed time variable[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 24643--24643 []\T1/pcr/m/n/10 # idvar, ids) # name / values of constructed id v ariable[] [1699] [1700] Underfull \hbox (badness 10000) in paragraph at lines 24803--24808 [][][]\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 24803--24808 [][][]\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 24814--24814 []\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 24815--24815 []\T1/pcr/m/n/9 reshape(Indometh, direction = "wide", idvar = "Subject", timev ar = "time")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 24834--24834 []\T1/pcr/m/n/9 reshape(df, timevar = "visit", idvar = "id", direction = "wide ", v.names = "x")[] [1701] [1702] Overfull \hbox (60.78088pt too wide) in paragraph at lines 24938--24938 [] \T1/pcr/m/n/10 na.action = c("+Big_alternate", "-Big_alternate", "na. omit", "fail"),[] Underfull \hbox (badness 1033) in paragraph at lines 24981--24987 \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 [1703] Underfull \hbox (badness 10000) in paragraph at lines 25002--25005 []\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] = [1704] Overfull \hbox (9.78043pt too wide) in paragraph at lines 25084--25084 []\T1/pcr/m/n/9 plot(myNHT, type = "b", ylim = c(48, 60), main = "Running Medi ans Example")[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 25113--25113 []\T1/pcr/m/n/9 ## An example with initial NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s - used to fail badly (notably for "Turlach"):[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 25125--25125 []\T1/pcr/m/n/9 matplot(y = cbind(x15, rT15), type = "b", ylim = c(1,9), pch=1 :5, xlab = NA,[] [1705] [1706] [1707] [1708] [1709] [1710] Underfull \vbox (badness 10000) has occurred while \output is active [1711] [1712] Underfull \hbox (badness 6268) in paragraph at lines 25584--25589 [][][]\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 , [1713] [1714] [1715] Underfull \hbox (badness 1867) in paragraph at lines 25794--25796 []\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 25810--25814 []\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 25810--25814 \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 [1716] Overfull \hbox (20.58041pt too wide) in paragraph at lines 25852--25852 []\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 25859--25859 []\T1/pcr/m/n/9 stopifnot(all.equal(sigma(fm.DN1), summary(fm.DN1)$sigma, tole rance=1e-15))[] [1717] [1718] [1719] Underfull \hbox (badness 2495) in paragraph at lines 26042--26051 []\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 [][]$\T1/pcr/m/n/10 https : / / en . [1720] [1721] Underfull \hbox (badness 2197) in paragraph at lines 26184--26187 []\T1/pcr/m/n/10 psmirnov []\T1/ptm/m/n/10 gives the dis-tri-bu-tion func-tion, []\T1/pcr/m/n/10 qsmirnov []\T1/ptm/m/n/10 gives the quan-tile func-tion, and Overfull \hbox (24.78088pt too wide) in paragraph at lines 26204--26204 [] \T1/pcr/m/n/10 twiceit = FALSE, endrule = c("Tukey", "copy"), do.ends = FALSE)[] Underfull \hbox (badness 1412) in paragraph at lines 26211--26213 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui red; de-faults to [1722] Overfull \hbox (25.98041pt too wide) in paragraph at lines 26298--26298 []\T1/pcr/m/n/9 matlines(cbind(smooth(x, "3R"), smooth(x, "S"), smooth(x, "3RS S"), smooth(x)))[] [1723] Overfull \hbox (84.78088pt too wide) in paragraph at lines 26323--26323 []\T1/pcr/m/n/10 smooth.spline(x, y = NULL, w = NULL, df, spar = NULL, lambda = NULL, cv = FALSE, Overfull \hbox (66.78088pt too wide) in paragraph at lines 26326--26326 [] \T1/pcr/m/n/10 control.spar = list(), tol = 1e-6 * IQR(x), kee p.stuff = FALSE)[] [1724] [1725] [1726] Overfull \hbox (6.78088pt too wide) in paragraph at lines 26561--26561 [] \T1/pcr/m/n/10 nx <- length(x) - sum(duplicated( round((x - mean(x)) / t ol) ))[] Underfull \hbox (badness 2547) in paragraph at lines 26565--26571 []\T1/ptm/m/n/10 The de-fault []\T1/pcr/m/n/10 all.knots = FALSE []\T1/ptm/m/n/ 10 and []\T1/pcr/m/n/10 nknots = .nknots.smspl[]\T1/ptm/m/n/10 , en-tails us-in g only [1727] Overfull \hbox (4.38043pt too wide) in paragraph at lines 26612--26612 []\T1/pcr/m/n/9 plot(dist ~ speed, data = cars, main = "data(cars) & smoothi ng splines")[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 26633--26633 []\T1/pcr/m/n/9 with(cars.spl$fit, min + range * knot[-c(1:3, nk+1 +1:3)]) # = = unique(cars$speed)[] Underfull \vbox (badness 10000) has occurred while \output is active [1728] [1729] [1730] Overfull \hbox (0.78088pt too wide) in paragraph at lines 26825--26825 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na. fail, [1731] [1732] [1733] [1734] [1735] [1736] Overfull \hbox (36.78088pt too wide) in paragraph at lines 27205--27205 [] \T1/pcr/m/n/10 method = c("fmm", "periodic", "natural", "monoH.FC" , "hyman"),[] [1737] [1738] Overfull \hbox (69.18036pt too wide) in paragraph at lines 27386--27386 []\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 27392--27392 []\T1/pcr/m/n/9 plot(x, y, main = "spline(x,y, ties=list(\"ordered\", mean)) for when x has ties")[] Underfull \vbox (badness 10000) has occurred while \output is active [1739] Overfull \hbox (31.3804pt too wide) in paragraph at lines 27401--27401 []\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 27402--27402 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "hyman") (x), add = TRUE, c ol = 4, n = 1001)[] [1740] Underfull \hbox (badness 2922) in paragraph at lines 27471--27476 []\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 (9.78043pt too wide) in paragraph at lines 27508--27508 [] \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 27511--27511 [] \T1/pcr/m/n/9 {f[phi](x) == phi[1] + (phi[2]-phi[1])*~e^ {-e^{phi[3]}*~x}}))[] [1741] Overfull \hbox (20.58041pt too wide) in paragraph at lines 27520--27520 [] \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 27521--27521 [] \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 27525--27525 [] \T1/pcr/m/n/9 axis(2, at = c(1,AR2,5), labels= expression(phi[2], frac(phi [1]+phi[2],2), phi[1]),[] Underfull \hbox (badness 3240) in paragraph at lines 27579--27582 [][][]\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 [1742] Overfull \hbox (36.7804pt too wide) in paragraph at lines 27600--27600 [] \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 27603--27603 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(-.5,6), xlim = c(-1, 8),[] [1743] Overfull \hbox (4.38043pt too wide) in paragraph at lines 27686--27686 [] \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 27690--27690 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5), xlim = c(-1/4, 5),[] Overfull \hbox (58.38037pt too wide) in paragraph at lines 27700--27700 [] \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)[] [1744] Overfull \hbox (106.98032pt too wide) in paragraph at lines 27705--27705 [] \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 27741--27747 []\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 27763--27763 []\T1/pcr/m/n/9 print(getInitial(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), dat a = Indo.1),[] [1745] Overfull \hbox (25.98041pt too wide) in paragraph at lines 27779--27779 [] \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 27793--27793 []\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 27795--27795 [] \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 27798--27798 []\T1/pcr/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (123.1803pt too wide) in paragraph at lines 27800--27800 [] \T1/pcr/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1746] [1747] Overfull \hbox (30.78088pt too wide) in paragraph at lines 27912--27912 []\T1/pcr/m/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input) - exp(-exp(lK a)*input)) [1748] Underfull \hbox (badness 2922) in paragraph at lines 27974--27979 []\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 [1749] Overfull \hbox (69.18036pt too wide) in paragraph at lines 28012--28012 [] \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "A", phi[2] == "B", phi[3] == "xm id", phi[4] == "scal")))[] Underfull \hbox (badness 2922) in paragraph at lines 28061--28066 []\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 [1750] Overfull \hbox (4.38043pt too wide) in paragraph at lines 28092--28092 []\T1/pcr/m/n/9 lines(x, do.call(SSgompertz, c(list(x=x), coef(fm1))), col = " red", lwd=2)[] Underfull \hbox (badness 2922) in paragraph at lines 28126--28131 []\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 [1751] Overfull \hbox (25.98041pt too wide) in paragraph at lines 28151--28151 []\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 28155--28155 []\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 28175--28175 [] \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "Asym", phi[2] == "xmid", phi[3] == "scal")))[] [1752] Overfull \hbox (20.58041pt too wide) in paragraph at lines 28185--28185 [] \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 28220--28225 []\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 28242--28242 []\T1/pcr/m/n/9 print(getInitial(rate ~ SSmicmen(conc, Vm, K), data = PurTrt), digits = 3)[] [1753] Overfull \hbox (15.18042pt too wide) in paragraph at lines 28260--28260 [] \T1/pcr/m/n/9 ann = FALSE, axes = FALSE, main = "Parameters in the SS micmen model")[] [1754] Underfull \hbox (badness 6493) in paragraph at lines 28312--28317 []\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 28340--28340 []\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 28343--28343 []\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 28346--28346 []\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 28349--28349 []\T1/pcr/m/n/9 As <- coef(fm1)[["Asym"]]; abline(v = 0, h = c(As, As - coef(f m1)[["Drop"]]), lty = 3)[] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] Underfull \hbox (badness 3396) in paragraph at lines 29233--29235 []\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 [1769] [1770] [1771] Underfull \hbox (badness 2237) in paragraph at lines 29412--29414 []\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 [1772] [1773] Underfull \hbox (badness 2591) in paragraph at lines 29576--29578 []\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 [1774] Underfull \hbox (badness 2237) in paragraph at lines 29622--29625 []\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 [1775] Overfull \hbox (48.78088pt too wide) in paragraph at lines 29695--29695 []\T1/pcr/m/n/10 supsmu(x, y, wt =, span = "cv", periodic = FALSE, bass = 0, t race = FALSE) [1776] [1777] Underfull \hbox (badness 3407) in paragraph at lines 29804--29808 []\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) [1778] Overfull \hbox (47.58038pt too wide) in paragraph at lines 29874--29874 []\T1/pcr/m/n/9 symnum(ii, cutpoints = 2*(0:4), symbols = c(".", "-", "+", "$ "), show.max = TRUE)[] [1779] Underfull \hbox (badness 1337) in paragraph at lines 29937--29941 []\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 [1780] [1781] [1782] [1783] Overfull \hbox (9.78043pt too wide) in paragraph at lines 30202--30202 []\T1/pcr/m/n/9 persp(tt, ncp, ptn, zlim = 0:1, r = 2, phi = 20, theta = 200, main = t.tit,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 30230--30230 [] \T1/pcr/m/n/10 use.factor.levels = TRUE, smooth = NULL, ylim = "com mon",[] [1784] Underfull \hbox (badness 1616) in paragraph at lines 30256--30259 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1785] Overfull \hbox (20.58041pt too wide) in paragraph at lines 30335--30335 []\T1/pcr/m/n/9 termplot(model, partial.resid = TRUE, smooth = panel.smooth, s pan.smth = 1/4)[] [1786] Overfull \hbox (0.78088pt too wide) in paragraph at lines 30413--30413 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = TRUE,[] [1787] [1788] Underfull \hbox (badness 2205) in paragraph at lines 30508--30513 []\T1/ptm/m/n/10 If a []\T1/pcr/m/n/10 specials []\T1/ptm/m/n/10 ar-gu-ment was given to [][][]\T1/pcr/m/n/10 terms.formula[][][] []\T1/ptm/m/n/10 there is a [1789] [1790] Overfull \hbox (12.78088pt too wide) in paragraph at lines 30649--30649 []\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 30655--30659 []\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 Overfull \hbox (36.7804pt too wide) in paragraph at lines 30692--30692 []\T1/pcr/m/n/9 # Matrix of character (could also have logical, raw, complex . .) {also warning}:[] [1791] Overfull \hbox (36.7804pt too wide) in paragraph at lines 30705--30705 [] \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 30716--30716 []\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 30718--30718 []\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 30748--30748 [] \T1/pcr/m/n/10 class = if(nseries > 1) c("mts", "ts", "matrix", "array") else "ts",[] [1792] [1793] Underfull \hbox (badness 1655) in paragraph at lines 30826--30829 []\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 , [1794] [1795] [1796] [1797] [1798] Overfull \hbox (12.78088pt too wide) in paragraph at lines 31190--31190 []\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 31191--31191 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE)[] [1799] [1800] [1801] [1802] [1803] Overfull \hbox (30.78088pt too wide) in paragraph at lines 31491--31491 [] \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 31492--31492 [] \T1/pcr/m/n/10 tol = .Machine$double.eps^0.25, maxiter = 1000, trace = 0)[] [1804] [1805] Overfull \hbox (31.3804pt too wide) in paragraph at lines 31621--31621 []\T1/pcr/m/n/9 ##--- uniroot() with new interval extension + checking feature s: --------------[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 31630--31630 []\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 [1806] [1807] [1808] Underfull \hbox (badness 1337) in paragraph at lines 31847--31851 []\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 [1809] [1810] [1811] [1812] [1813] [1814] [1815] [1816] Underfull \hbox (badness 1337) in paragraph at lines 32376--32380 []\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 [1817] [1818] [1819] Overfull \hbox (117.7803pt too wide) in paragraph at lines 32584--32584 []\T1/pcr/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 32586--32586 []\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)[] [1820] [1821] [1822] Overfull \hbox (138.78088pt too wide) in paragraph at lines 32745--32745 [] \T1/pcr/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1823] Overfull \hbox (0.78088pt too wide) in paragraph at lines 32830--32830 []\T1/pcr/m/n/10 xtabs(formula = ~., data = parent.frame(), subset, sparse = F ALSE, [1824] [1825] Overfull \hbox (47.58038pt too wide) in paragraph at lines 32963--32963 []\T1/pcr/m/n/9 ## The Female:Rejected combination has NA \TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 Freq\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 (and NA prints \TS1/pcr/m/n/9 '\T1 /pcr/m/n/9 invisibly\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 as "")[] [1826]) (./stats4-pkg.tex Chapter 11. [1827] [1828] [1829] Overfull \hbox (15.18042pt too wide) in paragraph at lines 224--224 [] \T1/pcr/m/n/9 -sum(stats::dpois(y, lambda = exp(lymax)/(1+x/exp(lxhalf)) , log = TRUE))[] Underfull \vbox (badness 10000) has occurred while \output is active [1830] Overfull \hbox (9.78043pt too wide) in paragraph at lines 278--278 []\T1/pcr/m/n/9 ## Boundary case: This works, but fails if limits are set clos er to 0 and 1[] [1831] [1832] [1833] [1834]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1835] [1836] [1837]) (./tcltk-pkg.tex [1838] Chapter 12. [1839] [1840] [1841] [1842] [1843] Overfull \hbox (36.7804pt too wide) in paragraph at lines 360--360 []\T1/pcr/m/n/9 ls(envir = .TkRoot$env, all.names = TRUE) # .Tcl.args put a ca llback ref in here[] [1844] [1845] Underfull \vbox (badness 10000) has occurred while \output is active [1846] Underfull \hbox (badness 1292) in paragraph at lines 671--678 []\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 Underfull \vbox (badness 1603) has occurred while \output is active [1847] [1848] [1849] [1850] [1851] Underfull \vbox (badness 10000) has occurred while \output is active [1852] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1084--1084 []\T1/pcr/m/n/9 eval.txt <- function() eval(str2lang(tclvalue(tkget(txt.w, "0. 0", "end"))))[] [1853] [1854] [1855] [1856] [1857] Underfull \hbox (badness 1189) in paragraph at lines 1412--1415 [][][]\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 [1858]) (./tools-pkg.tex Chapter 13. [1859] 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.[] [1860] 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 [1861] 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)[] [1862] Underfull \hbox (badness 5147) in paragraph at lines 288--301 []\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 288--301 \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 288--301 \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 , [1863] Overfull \hbox (42.78088pt too wide) in paragraph at lines 373--373 []\T1/pcr/m/n/10 buildVignette(file, dir = ".", weave = TRUE, latex = TRUE, ta ngle = TRUE, Underfull \hbox (badness 2460) in paragraph at lines 392--394 []\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 [1864] [1865] Underfull \hbox (badness 1142) in paragraph at lines 464--468 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1866] [1867] [1868] [1869] [1870] [1871] [1872] Overfull \hbox (0.78088pt too wide) in paragraph at lines 921--921 []\T1/pcr/m/n/10 resaveRdaFiles(paths, compress = c("auto", "gzip", "bzip2", " xz"),[] [1873] Overfull \hbox (31.3804pt too wide) in paragraph at lines 976--976 []\T1/pcr/m/n/9 bad <- is.na(res$ASCII) | res$ASCII | (res$size > 1e4 & res$co mpress == "none")[] [1874] [1875] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1145--1145 [] \T1/pcr/m/n/10 outputs = FALSE, sources = FALS E, ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1146--1146 []\T1/pcr/m/n/10 check_packages_in_dir_details(dir, logs = NULL, drop_ok = TRU E, ...)[] [1876] Underfull \hbox (badness 1014) in paragraph at lines 1188--1190 []\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 1194--1196 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1877] Underfull \hbox (badness 10000) in paragraph at lines 1231--1234 []\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 1231--1234 \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 1239--1242 []\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 [1878] [1879] Underfull \hbox (badness 10000) in paragraph at lines 1386--1389 []\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 [1880] [1881] Underfull \hbox (badness 4647) in paragraph at lines 1558--1563 []\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 1558--1563 \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 1558--1563 \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 [1882] Underfull \hbox (badness 2762) in paragraph at lines 1607--1610 []\T1/ptm/m/n/10 Internal func-tions []\T1/pcr/m/n/10 CRAN_aliases_db[]\T1/ptm/ m/n/10 , []\T1/pcr/m/n/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CR AN_current_db []\T1/ptm/m/n/10 and [1883] [1884] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1719--1719 [] \T1/pcr/m/n/10 utils::installed.packages(lib.loc, fields = "En hances"))[] Underfull \hbox (badness 7981) in paragraph at lines 1726--1734 []\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 1726--1734 []\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", Underfull \hbox (badness 1558) in paragraph at lines 1726--1734 \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, [1885] [1886] [1887]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1938 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1939 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1888] [1889] [1890] [1891] Underfull \hbox (badness 1142) in paragraph at lines 2208--2214 []\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 [1892] Underfull \hbox (badness 2359) in paragraph at lines 2272--2279 []\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 2272--2279 \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 2272--2279 \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 [1893] Underfull \hbox (badness 1342) in paragraph at lines 2324--2330 \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 2349--2356 []\T1/pcr/m/n/10 matchConcordance []\T1/ptm/m/n/10 con-verts from out-put lo-ca -tions to source lo-ca-tions. 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[1895] [1896] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2538--2538 []\T1/pcr/m/n/10 package_dependencies(packages = NULL, db = NULL, which = "str ong", Underfull \hbox (badness 7981) in paragraph at lines 2553--2561 []\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 2553--2561 []\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", Underfull \hbox (badness 1558) in paragraph at lines 2553--2561 \T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . 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Rd"),[] [1902] Underfull \hbox (badness 2486) in paragraph at lines 2951--2959 []\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 [1903] [1904] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3163--3163 []\T1/pcr/m/n/10 checkDocFiles (package, dir, lib.loc = NULL, chkInternal = FALSE) [1905] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3167--3167 []\T1/pcr/m/n/10 checkRdContents (package, dir, lib.loc = NULL, chkInternal = FALSE)[] [1906] [1907] [1908] Underfull \hbox (badness 1072) in paragraph at lines 3359--3361 []\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 [1909] [1910] [1911] [1912] [1913] Overfull \hbox (72.78088pt too wide) in paragraph at lines 3707--3707 [] \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macro s", "system.Rd"))[] Underfull \hbox (badness 5417) in paragraph at lines 3745--3755 []\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 , [1914] [1915] [1916] Underfull \hbox (badness 4108) in paragraph at lines 3955--3962 []\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 [1917] [1918] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4055--4055 [] \T1/pcr/m/n/10 types = c("examples", "tests", "vignett es"),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4058--4058 []\T1/pcr/m/n/10 testInstalledBasic(scope = c("basic", "devel", "both", "inter net"))[] Underfull \hbox (badness 10000) in paragraph at lines 4075--4077 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1919] Underfull \hbox (badness 2932) in paragraph at lines 4092--4098 []\T1/pcr/m/n/10 testInstalledBasic []\T1/ptm/m/n/10 runs the ba-sic tests, if in-stalled. This should be run with [1920] Underfull \hbox (badness 7832) in paragraph at lines 4214--4217 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/pcr/m/n/10 texi2dvi []\T1/ptm/m/n/10 5 .0 and later; []\T1/pcr/m/n/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op-ti on [1921] [1922] [1923] [1924] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4449--4449 [] \T1/pcr/m/n/10 "mac.binary", "win.binary"), verbose.level = as.integer(dry run),[] [1925] [1926] Overfull \hbox (96.78088pt too wide) in paragraph at lines 4611--4611 []\T1/pcr/m/n/10 update_pkg_po(pkgdir, pkg = NULL, version = NULL, mergeOpts = "", copyright, bugs) Underfull \hbox (badness 3118) in paragraph at lines 4622--4626 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/pcr/m/n/10 m sgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 10000) in paragraph at lines 4626--4629 []\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 [1927] Underfull \hbox (badness 6859) in paragraph at lines 4642--4647 []\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 4650--4656 []\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 4650--4656 \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 [1928] [1929] [1930] Underfull \hbox (badness 10000) in paragraph at lines 4876--4878 []\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 [1931] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4905--4905 [] \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F ALSE,[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 4906--4906 [] \T1/pcr/m/n/10 latestOnly = TRUE, addFiles = FALSE, rds_compr ess = "xz",[] Underfull \hbox (badness 3240) in paragraph at lines 4919--4922 []\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 4923--4933 []\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 , Underfull \hbox (badness 1127) in paragraph at lines 4961--4967 []\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 4961--4967 \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 ', [1932] Underfull \hbox (badness 1571) in paragraph at lines 4989--4993 []\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 5015--5020 \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 [1933] [1934] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5157--5157 []\T1/pcr/m/n/9 xgettext(tmpPkg, asCall=TRUE )[[1]] # default; shows \TS1/pcr /m/n/9 ' \T1/pcr/m/n/9 sqrt(as.complex(x)) \TS1/pcr/m/n/9 '[] [1935]) (./utils-pkg.tex [1936] 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 ', [1937] [1938] [1939] [1940] Overfull \hbox (4.38043pt too wide) in paragraph at lines 261--261 []\T1/pcr/m/n/9 find("cor", numeric = TRUE) # numbers with these names[] [1941] [1942] Underfull \hbox (badness 10000) in paragraph at lines 381--386 \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 387--389 []\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 [1943] Overfull \hbox (9.78043pt too wide) in paragraph at lines 453--453 []\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 455--455 []\T1/pcr/m/n/9 .arrangeWindowsDefaults <- list(c("R", "all"), pattern = c("", "Firefox"))[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 472--472 [] \T1/pcr/m/n/10 prompts = getOption("askYesNo", gettext(c("Yes", "No ", "Cancel"))),[] [1944] [1945] [1946] Overfull \hbox (0.78088pt too wide) in paragraph at lines 686--686 []\T1/pcr/m/n/10 aspell_package_Rd_files(dir, drop = c("\\author", "\\referenc es"), Overfull \hbox (6.78088pt too wide) in paragraph at lines 692--692 []\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 693--693 [] \T1/pcr/m/n/10 program = NULL, dictionaries = charact er())[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 694--694 []\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 695--695 [] \T1/pcr/m/n/10 program = NULL, dictionaries = charact er())[] [1947] Underfull \hbox (badness 10000) in paragraph at lines 729--735 []\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 729--735 []\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- [1948] [1949] [1950] [1951] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1053--1053 []\T1/pcr/m/n/10 bibentry(bibtype, textVersion = NULL, header = NULL, footer = NULL, [1952] Underfull \hbox (badness 7649) in paragraph at lines 1127--1133 [][][]\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 1127--1133 \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 1127--1133 \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 1817) in paragraph at lines 1127--1133 \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 1136--1138 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1953] [1954] Underfull \hbox (badness 10000) in paragraph at lines 1255--1258 []\T1/ptm/m/n/10 The DOI ([][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Digital _ Object _ [1955] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1338--1338 [] \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi nkley [aut]"),[] Underfull \vbox (badness 10000) has occurred while \output is active [1956] [1957] [1958] [1959] [1960] [1961] Underfull \hbox (badness 1859) in paragraph at lines 1747--1756 []\T1/ptm/m/n/10 For ex-am-ple, sup-pose that on a data set which you know to b e quite large the com- Underfull \hbox (badness 2042) in paragraph at lines 1747--1756 \T1/ptm/m/n/10 mand []\T1/pcr/m/n/10 data.frame(x, y, z, monday, tuesday) []\T1 /ptm/m/n/10 never re-turns. Do not re-port that [1962] [1963] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1852--1852 [] \T1/pcr/m/n/9 data = infert, family = b inomial())))[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 1887--1887 []\T1/pcr/m/n/10 changedFiles(before, after, path = before$path, timestamp = b efore$timestamp,[] [1964] [1965] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2033--2033 []\T1/pcr/m/n/9 snapshot <- fileSnapshot(dir, timestamp = tempfile("timestamp" ), md5sum=TRUE)[] [1966] Underfull \hbox (badness 2277) in paragraph at lines 2102--2107 []\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 [1967] Overfull \hbox (36.7804pt too wide) in paragraph at lines 2134--2134 []\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 2136--2136 []\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 2144--2144 []\T1/pcr/m/n/9 ## How many printable characters are there? (Around 280,000 in Unicode 13.)[] [1968] [1969] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2292--2292 []\T1/pcr/m/n/10 chooseBioCmirror(graphics = getOption("menu.graphics"), ind = NULL, [1970] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2344--2344 []\T1/pcr/m/n/10 chooseCRANmirror(graphics = getOption("menu.graphics"), ind = NULL, [1971] Underfull \hbox (badness 1117) in paragraph at lines 2459--2466 []\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 2459--2466 \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 [1972] [1973] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2542--2542 []\T1/pcr/m/n/10 citeNatbib(keys, bib, textual = FALSE, before = NULL, after = NULL,[] [1974] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2662--2662 [] \T1/pcr/m/n/9 author = as.person("Anthony C. Davison [aut], David V. Hi nkley [aut]"),[] [1975] Overfull \hbox (24.78088pt too wide) in paragraph at lines 2702--2702 []\T1/pcr/m/n/10 citEntry(entry, textVersion = NULL, header = NULL, footer = N ULL, ...) Underfull \hbox (badness 1082) in paragraph at lines 2731--2735 [][][]\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; [1976]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cli pboard}) has been already used, duplicate ignored \relax l.2736 ... the Clipboard in MS Windows}{clipboard} Underfull \hbox (badness 1163) in paragraph at lines 2767--2769 []\T1/ptm/m/n/10 The Win-dows clip-board of-fers data in a num-ber of for-mats: see e.g. [][]$\T1/pcr/m/n/10 https : / / docs . Overfull \vbox (1.12102pt too high) has occurred while \output is active [1977] [1978] Underfull \hbox (badness 10000) in paragraph at lines 2860--2862 []\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 [1979] [1980] [1981] Underfull \hbox (badness 10000) in paragraph at lines 3078--3080 []\T1/ptm/m/n/10 character string, in-di-cat-ing which type of pack-ages: see [1982] [1983] [1984] [1985] Underfull \hbox (badness 1762) in paragraph at lines 3371--3374 []\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 = [1986] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3463--3463 []\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 3464--3464 []\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 '[] [1987] Underfull \hbox (badness 2452) in paragraph at lines 3538--3541 []\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 [1988] [1989] [1990] [1991] [1992] [1993] Overfull \hbox (74.58035pt too wide) in paragraph at lines 3967--3967 [] \T1/pcr/m/n/9 DLL.version(file.path(R.home(), "library/stats/libs", .Platf orm$r_arch, "stats.dll"))[] [1994] Underfull \hbox (badness 4779) in paragraph at lines 4046--4051 []\T1/ptm/m/n/10 Support for method []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [1995] Underfull \hbox (badness 1072) in paragraph at lines 4109--4113 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/pcr/m/n/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [1996] Underfull \hbox (badness 7238) in paragraph at lines 4165--4170 []\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 and []\T1/ pcr/m/n/10 "curl" []\T1/ptm/m/n/10 meth-ods, prox-ies can be set \T1/ptm/m/it/1 0 via \T1/ptm/m/n/10 the en-vi-ron- Underfull \hbox (badness 1337) in paragraph at lines 4165--4170 \T1/ptm/m/n/10 ment vari-ables []\T1/pcr/m/n/10 http_proxy []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 ftp_proxy[]\T1/ptm/m/n/10 . See [][]$\T1/pcr/m/n/10 https : / / curl . se / libcurl / c / Underfull \hbox (badness 1184) in paragraph at lines 4180--4196 \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- [1997] [1998] Underfull \hbox (badness 4660) in paragraph at lines 4306--4309 \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 4330--4332 []\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 [1999] [2000] [2001] Underfull \hbox (badness 1565) in paragraph at lines 4517--4521 []\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 [2002] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4600--4600 [] \T1/pcr/m/n/10 character.only = FALSE, give.lines = FALSE, local = F ALSE,[] [2003] Underfull \hbox (badness 1910) in paragraph at lines 4634--4641 \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 4634--4641 \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 4634--4641 []\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 4634--4641 \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 4641--4648 []\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) [2004] [2005] [2006] Underfull \hbox (badness 5939) in paragraph at lines 4887--4889 []\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 [2007] [2008] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5030--5030 []\T1/pcr/m/n/9 # Set a breakpoint in both copies of that function, assuming o ne is in the[] [2009] [2010]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.format}) has been already used, duplicate ignored \relax l.5101 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.5101 ...mat Unordered and Ordered Lists}{format} [2011] [2012] [2013] [2014] [2015] [2016] [2017] [2018] Underfull \hbox (badness 1622) in paragraph at lines 5624--5628 []\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 [2019] [2020] [2021] [2022] [2023] Underfull \hbox (badness 1448) in paragraph at lines 6003--6008 []\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 [2024] [2025] Overfull \hbox (96.78088pt too wide) in paragraph at lines 6153--6153 []\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[] [2026] Overfull \hbox (66.78088pt too wide) in paragraph at lines 6165--6165 []\T1/pcr/m/n/10 tail(x, n = 6L, keepnums = TRUE, addrownums, ...) # exported as tail.matrix()[] [2027] [2028] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6299--6299 [] \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 6300--6300 [] \T1/pcr/m/n/9 ## --- because [i,j]-indexing of data frames *also* drops "other" attributes ..[] [2029] [2030] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6510--6510 [] \T1/pcr/m/n/9 ## -> nicely formatted pdf -- including math formula -- for h elp(dgamma):[] [2031] Underfull \hbox (badness 10000) in paragraph at lines 6594--6596 []\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 [2032] Underfull \hbox (badness 1502) in paragraph at lines 6643--6648 []\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 6643--6648 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2033] [2034] [2035] Underfull \hbox (badness 10000) in paragraph at lines 6816--6825 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, Underfull \hbox (badness 10000) in paragraph at lines 6816--6825 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 R.home("docs")/html/packages.html\T1/ptm/m/n/10 ', which can be re-made by [2036] Underfull \hbox (badness 2150) in paragraph at lines 6880--6883 []\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 6896--6899 []\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 [2037] [2038] Underfull \hbox (badness 3118) in paragraph at lines 7019--7021 []\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 [2039] [2040] Underfull \hbox (badness 5091) in paragraph at lines 7194--7196 []\T1/ptm/m/n/10 download method, see [][][]\T1/pcr/m/n/10 download.file[][][][ ]\T1/ptm/m/n/10 . Un-used if a non-[]\T1/pcr/m/n/10 NULL Underfull \hbox (badness 10000) in paragraph at lines 7224--7231 []\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 7224--7231 \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 7224--7231 \T1/pcr/m/n/10 "LinkingTo") []\T1/ptm/m/n/10 for added de-pen-den-cies: this in -stalls all the pack-ages [2041] Underfull \hbox (badness 1270) in paragraph at lines 7239--7249 \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 4441) in paragraph at lines 7282--7285 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be passed to Underfull \hbox (badness 2837) in paragraph at lines 7282--7285 []\T1/pcr/m/n/10 R 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 1424) in paragraph at lines 7290--7293 []\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 [2042] Underfull \hbox (badness 2376) in paragraph at lines 7361--7368 []\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 7361--7368 \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 7361--7368 \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 7369--7372 []\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 [2043] Underfull \hbox (badness 1314) in paragraph at lines 7449--7456 []\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 [2044] Underfull \hbox (badness 10000) in paragraph at lines 7532--7537 [][][]\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 7555--7555 [] \T1/pcr/m/n/9 configure.args = c(RNetCDF = "--with-netcdf-include=/usr/inc lude/udunits2"))[] [2045] Underfull \hbox (badness 5133) in paragraph at lines 7591--7595 []\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 7605--7608 []\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 [2046] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7652--7652 []\T1/pcr/m/n/9 plic <- installed.packages(.Library, priority = "high", fields = "License")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7657--7657 []\T1/pcr/m/n/9 ## Keep packages that come with R (priority="high") and all ot hers separate![] [2047] [2048] Underfull \hbox (badness 4132) in paragraph at lines 7783--7785 []\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 [2049] [2050] [2051] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7950--7950 []\T1/pcr/m/n/9 ls.str(mode = "list") #- what are the structured objects I h ave defined?[] [2052] [2053] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8093--8093 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F ALSE) [2054] Underfull \hbox (badness 10000) in paragraph at lines 8133--8135 []\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 [2055] Underfull \hbox (badness 10000) in paragraph at lines 8238--8240 []\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 8243--8245 []\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 [2056] [2057] [2058] [2059] Underfull \hbox (badness 1859) in paragraph at lines 8471--8474 []\T1/ptm/m/n/10 logical spec-i-fy-ing that the news should be opened in the br owser (by Underfull \hbox (badness 1052) in paragraph at lines 8490--8500 \T1/ptm/m/n/10 ac-cord-ing to ver-sion us-ing \T1/pcr/m/n/10 section \T1/ptm/m/ n/10 el-e-ments with names start-ing with a suit-able pre-fix [2060] Underfull \hbox (badness 1655) in paragraph at lines 8565--8568 []\T1/ptm/m/n/10 A data frame in-her-it-ing from class []\T1/pcr/m/n/10 "news_d b"[]\T1/ptm/m/n/10 , with [][][]\T1/pcr/m/n/10 attributes[][][] "package" []\T1 /ptm/m/n/10 (and Overfull \hbox (25.98041pt too wide) in paragraph at lines 8576--8576 []\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 8584--8584 []\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):[] [2061] Overfull \hbox (47.58038pt too wide) in paragraph at lines 8592--8592 []\T1/pcr/m/n/9 ## Which categories have been in use? % R-core maybe should st andardize a bit more[] [2062] Underfull \hbox (badness 1917) in paragraph at lines 8679--8681 []\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 , [2063] Underfull \vbox (badness 10000) has occurred while \output is active [2064] [2065] [2066] Overfull \hbox (66.78088pt too wide) in paragraph at lines 8953--8953 [] \T1/pcr/m/n/10 date.fields = c("Date", "Packaged", "Date/Publica tion", "Built"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 8954--8954 [] \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 8955--8955 [] \T1/pcr/m/n/10 desc = packageDescription(pkg, lib.loc=lib.loc, f ields=date.fields))[] [2067] Underfull \hbox (badness 10000) in paragraph at lines 8983--8985 []\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 8997--8999 []\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 9005--9010 []\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, [2068] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9049--9049 [] \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 9050--9050 [] \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[] [2069] [2070] Underfull \hbox (badness 10000) in paragraph at lines 9178--9183 []\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 9185--9188 []\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 [2071] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9300--9300 [] \T1/pcr/m/n/10 include = c("given", "family", "email", "role", "comme nt"),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9301--9301 [] \T1/pcr/m/n/10 braces = list(given = "", family = "", email = c("<", ">"),[] [2072] [2073] [2074] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9481--9481 [] \T1/pcr/m/n/9 "S original, "),[] [2075] [2076] Underfull \hbox (badness 1789) in paragraph at lines 9651--9653 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] [2087] [2088] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10489--10489 [] \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", " no.loss"),[] [2089] [2090] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10650--10650 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header = TRUE, tr anspose = TRUE)[] [2091] [2092] [2093] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10831--10831 []\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[] [2094] Overfull \hbox (42.78088pt too wide) in paragraph at lines 10917--10917 [] \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", "no.loss"),[] Overfull \hbox (72.78088pt too wide) in paragraph at lines 10918--10918 [] \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 10920--10920 [] \T1/pcr/m/n/10 skip = 0, check.names = TRUE, fill = !blank.lines. skip,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 10925--10925 [] \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, ski pNul = FALSE)[] [2095] Underfull \hbox (badness 2027) in paragraph at lines 10997--11000 []\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 [2096] Underfull \hbox (badness 2435) in paragraph at lines 11020--11024 []\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 11020--11024 []\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 [2097] [2098] [2099] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11281--11281 []\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 11282--11282 [] \T1/pcr/m/n/10 maxdepth = 1, view = c("default", "32-bit", "64- bit"))[] Underfull \hbox (badness 10000) in paragraph at lines 11289--11294 []\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 11289--11294 \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 11289--11294 []\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 [2100] [2101] [2102] [2103] Overfull \hbox (18.78088pt too wide) in paragraph at lines 11521--11521 [] \T1/pcr/m/n/10 ipar <- list(mean = c(0, 1), vcov = c bind(c(1, 1), c (1, 0))) [2104] [2105] [2106] [2107] Underfull \hbox (badness 10000) in paragraph at lines 11787--11791 \T1/pcr/m/n/10 en . wikipedia . org / w / index . php ? title = Roman _ numeral s & oldid = 78252134$[][]\T1/ptm/m/n/10 . Overfull \hbox (20.58041pt too wide) in paragraph at lines 11805--11805 []\T1/pcr/m/n/9 as.roman(c(NA, 1:3, "", strrep("I", 1:6))) # + NA with a warni ng for "IIIIII"[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11810--11810 []\T1/pcr/m/n/9 ## simple consistency checks -- arithmetic when result is in {1,2,..,3899} :[] [2108] [2109] Overfull \hbox (18.78088pt too wide) in paragraph at lines 11946--11946 []\T1/pcr/m/n/10 4. | \-base:::tryCatchOne(expr, names, parentenv, handler s[[1L]])[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 11947--11947 []\T1/pcr/m/n/10 5. | \-base:::doTryCatch(return(expr), name, parentenv, handler)[] [2110] [2111] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12082--12082 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold = 0) [2112] [2113] Underfull \hbox (badness 1917) in paragraph at lines 12214--12217 []\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 12214--12217 \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 12237--12237 []\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 '[] [2114] [2115] Overfull \hbox (54.78088pt too wide) in paragraph at lines 12329--12329 [] \T1/pcr/m/n/10 restrict = c("functions", "descriptions", "news", "Rfunctions",[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 12330--12330 [] \T1/pcr/m/n/10 "Rmanuals", "READMEs", "views", "vig nettes"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 12332--12332 [] \T1/pcr/m/n/10 sortby = c("score", "date:late", "date:early", "s ubject",[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 12333--12333 [] \T1/pcr/m/n/10 "subject:descending", "size", "size:de scending"),[] Underfull \hbox (badness 6725) in paragraph at lines 12356--12364 \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 12356--12364 \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 [2116] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12401--12401 []\T1/pcr/m/n/9 fullquery <- RSiteSearch("lattice", restrict = c("vignettes"," Rfunctions"))[] [2117] Underfull \hbox (badness 1377) in paragraph at lines 12457--12460 []\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 Underfull \hbox (badness 3646) in paragraph at lines 12492--12494 [][][]$\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 / [2118] Overfull \hbox (30.78088pt too wide) in paragraph at lines 12530--12530 [] \T1/pcr/m/n/10 split = FALSE, quiet = FALSE, drop.evalFALSE = F ALSE, ...)[] [2119] [2120] Underfull \hbox (badness 10000) in paragraph at lines 12712--12716 []\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 [2121] Underfull \hbox (badness 10000) in paragraph at lines 12745--12751 []\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 12760--12766 []\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 [2122] [2123] Overfull \hbox (6.78088pt too wide) in paragraph at lines 12917--12917 [] \T1/pcr/m/n/10 units = "in", type = "quartz", bg = "transpa rent")[] Underfull \hbox (badness 1009) in paragraph at lines 12935--12947 []\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 [2124] Underfull \hbox (badness 2600) in paragraph at lines 12975--12977 []\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 Underfull \hbox (badness 1043) in paragraph at lines 13018--13023 []\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 [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 1888) in paragraph at lines 13320--13323 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the plat-form \T1/phv/m/n/10 R \T1/ptm/m/n/10 was built un-der. Where Underfull \hbox (badness 10000) in paragraph at lines 13337--13340 []\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 13340--13343 []\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in g [2130] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13386--13386 []\T1/pcr/m/n/9 toLatex(sI, locale = FALSE) # shortest; possibly desirable at end of report[] [2131] Underfull \hbox (badness 2158) in paragraph at lines 13445--13448 []\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 Overfull \hbox (0.78088pt too wide) in paragraph at lines 13493--13493 []\T1/pcr/m/n/10 setWindowTitle(suffix, title = paste(getIdentification(), suf fix)) [2132] [2133] [2134] Underfull \hbox (badness 2302) in paragraph at lines 13650--13652 []\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 [2135] Underfull \hbox (badness 3333) in paragraph at lines 13758--13760 []\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- [2136] [2137] [2138] Overfull \hbox (42.78088pt too wide) in paragraph at lines 13925--13925 [] \T1/pcr/m/n/10 format(x, trim = TRUE, drop0trailing = TRUE, ...))[] Underfull \hbox (badness 2012) in paragraph at lines 13949--13954 []\T1/ptm/m/n/10 logical; if []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 (de-fault), [][][]\T1/pcr/m/n/10 deparse[][][](control = ) []\T1/ptm/m/n/10 will not ha ve Underfull \hbox (badness 5970) in paragraph at lines 13958--13961 []\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 13958--13961 [][][]\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 13969--13978 []\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; [2139] Underfull \hbox (badness 1442) in paragraph at lines 13985--13989 []\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 14031--14031 []\T1/pcr/m/n/9 str(.Machine, digits.d = 20) # extra digits for identification of binary numbers[] [2140] Overfull \hbox (15.18042pt too wide) in paragraph at lines 14058--14058 []\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 14065--14065 []\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 14067--14067 []\T1/pcr/m/n/9 invisible(lapply(60:66, function(N) str( ch , nchar.max = N))) # "1 is 1" here[] [2141] [2142] [2143] Underfull \hbox (badness 10000) in paragraph at lines 14233--14235 []\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 [2144] Underfull \hbox (badness 10000) in paragraph at lines 14343--14346 []\T1/ptm/m/n/10 further ar-gu-ments passed to the driver's setup func-tion. Se e Underfull \hbox (badness 1389) in paragraph at lines 14343--14346 [][][]\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- [2145] Underfull \hbox (badness 6300) in paragraph at lines 14391--14398 []\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 14391--14398 \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 14391--14398 \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$"[]\T1/ptm/m/n/10 ) and [2146] [2147] Underfull \hbox (badness 2020) in paragraph at lines 14555--14563 \T1/ptm/m/n/10 si-bly use-ful val-ues in-clude `[]\T1/pcr/m/n/10 -h[]\T1/ptm/m/ n/10 ' (fol-low sym-bolic links, also `[]\T1/pcr/m/n/10 -L[]\T1/ptm/m/n/10 ' on some plat-forms), Underfull \hbox (badness 1194) in paragraph at lines 14555--14563 \T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 --acls[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 -- exclude-backups[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --exclude-vcs[]\T1/ptm/m/n /10 ' (and sim-i-lar) and on Win-dows [2148] Underfull \hbox (badness 1622) in paragraph at lines 14564--14571 []\T1/ptm/m/n/10 A con-ve-nient and ro-bust way to set op-tions for GNU []\T1/p cr/m/n/10 tar []\T1/ptm/m/n/10 is via en-vi-ron-ment vari-able [2149] Underfull \hbox (badness 5022) in paragraph at lines 14705--14709 []\T1/ptm/m/n/10 When ar-gu-ment []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 is set t o the com-mand []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 14712--14715 [][][]$\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 14712--14715 \T1/pcr/m/n/10 opengroup . org / onlinepubs / 9699919799 / utilities / pax . ht ml # tag _ 20 _ 92 _ [2150] [2151] [2152] [2153] [2154] [2155] [2156] [2157] [2158] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15330--15330 [] \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc, ...),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15336--15336 [] \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc, ...),[] [2159] Underfull \hbox (badness 4467) in paragraph at lines 15357--15359 []\T1/ptm/m/n/10 Download method, see [][][]\T1/pcr/m/n/10 download.file[][][][ ]\T1/ptm/m/n/10 . Un-used if a non-[]\T1/pcr/m/n/10 NULL Underfull \hbox (badness 4660) in paragraph at lines 15372--15376 \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 15386--15390 []\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 15392--15397 []\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 15392--15397 \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 15392--15397 []\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 15398--15400 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See [2160] Underfull \hbox (badness 10000) in paragraph at lines 15428--15433 []\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 15428--15433 \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 Underfull \hbox (badness 10000) in paragraph at lines 15449--15454 []\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 15457--15460 [][][]\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 , [2161] Overfull \hbox (15.18042pt too wide) in paragraph at lines 15534--15534 []\T1/pcr/m/n/9 ## Not run: url.show("https://www.stats.ox.ac.uk/pub/datasets/ csb/ch3a.txt") [2162] [2163] [2164] Underfull \hbox (badness 2293) in paragraph at lines 15741--15744 [][][]\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[][][](, [2165] Overfull \hbox (42.18039pt too wide) in paragraph at lines 15757--15757 []\T1/pcr/m/n/9 ## Note that \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 package = *\TS1/pcr /m/n/9 ' \T1/pcr/m/n/9 is much faster in the case of many installed packages:[] [2166] Overfull \hbox (4.38043pt too wide) in paragraph at lines 15824--15824 [] \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 15846--15846 [] \T1/pcr/m/n/9 nls(weight ~ SSlogis(Time, Asym, xmid, scal), data = DD)))[] [2167] [2168] Underfull \hbox (badness 1297) in paragraph at lines 15978--15980 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the ac-tion when that menu i s se-lected, or [2169] Underfull \hbox (badness 4036) in paragraph at lines 16025--16027 []\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. [2170] [2171] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16145--16145 []\T1/pcr/m/n/10 write.table(x, file = "", append = FALSE, quote = TRUE, sep = " ", [2172] Underfull \hbox (badness 1715) in paragraph at lines 16197--16200 []\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 16242--16244 []\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 = [2173] [2174] [2175]) [2176] [2177] [2178] (./KernSmooth-pkg.tex Chapter 15. [2179] Overfull \hbox (24.78088pt too wide) in paragraph at lines 123--123 []\T1/pcr/m/n/10 bkde2D(x, bandwidth, gridsize = c(51L, 51L), range.x, truncat e = TRUE) [2180] [2181] [2182] [2183] [2184] Overfull \hbox (18.78088pt too wide) in paragraph at lines 518--518 []\T1/pcr/m/n/10 dpill(x, y, blockmax = 5, divisor = 20, trim = 0.01, proptrun = 0.05, [2185] [2186] [2187] [2188]) (./MASS-pkg.tex Chapter 16. [2189] [2190] [2191] [2192] [2193] [2194] [2195] [2196] [2197] [2198] [2199] Overfull \hbox (20.58041pt too wide) in paragraph at lines 772--772 []\T1/pcr/m/n/9 dreg <- cbind(sin = sin(2*pi*beav2$hours/24), cos = cos(2*pi*b eav2$hours/24))[] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] [2221] [2222] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2418--2418 []\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 2422--2422 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", "F"),[] [2223] [2224] [2225] [2226] Underfull \hbox (badness 6559) in paragraph at lines 2701--2704 []\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 [2227] [2228] [2229] Underfull \hbox (badness 10000) in paragraph at lines 2871--2876 []\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 2871--2876 []\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 , [2230] [2231] Underfull \hbox (badness 4686) in paragraph at lines 3043--3045 []\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 [2232] [2233] [2234] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3243--3243 [] \T1/pcr/m/n/10 eps.max = .Machine$double.eps^0.25, verbose = FAL SE, ...)[] [2235] [2236] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3373--3373 []\T1/pcr/m/n/9 survreg(Surv(time, cens) ~ factor(pair) + treat, gehan, dist = "exponential")[] [2237] [2238] [2239] [2240] [2241] [2242] [2243] [2244] [2245] [2246] [2247] Underfull \hbox (badness 1845) in paragraph at lines 4173--4175 []\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 [2248] [2249] [2250] [2251] [2252] [2253] [2254] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4667--4667 [] \T1/pcr/m/n/10 col = 5, xlab = deparse(substitute(data)), bty = "n", ...)[] [2255] [2256] [2257] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4889--4889 []\T1/pcr/m/n/10 lm.ridge(formula, data, subset, na.action, lambda = 0, model = FALSE, [2258] [2259] [2260] [2261] [2262] [2263] [2264] [2265] [2266] [2267] [2268] [2269] [2270] [2271] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5944--5944 []\T1/pcr/m/n/10 mvrnorm(n = 1, mu, Sigma, tol = 1e-6, empirical = FALSE, EISP ACK = FALSE) [2272] Overfull \hbox (48.78088pt too wide) in paragraph at lines 6005--6005 []\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") [2273] [2274]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.npk}) has been already used, duplicate ignored \relax l.6165 ...sical N, P, K Factorial Experiment}{npk} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.npk.1}) has been already used, duplica te ignored \relax l.6165 ...sical N, P, K Factorial Experiment}{npk} [2275] [2276] [2277] [2278] [2279] [2280] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6585--6585 [] \T1/pcr/m/n/9 start = list(fixed=c(L75=c(48.7, -0.03), lsc=0.24)), verb ose = TRUE)))[] [2281] Overfull \hbox (18.78088pt too wide) in paragraph at lines 6673--6673 [] \T1/pcr/m/n/10 dimen, abbrev = FALSE, ..., cex=0.7, type = c("std", "tr ellis"))[] [2282] [2283] [2284] [2285] [2286] [2287] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7112--7112 []\T1/pcr/m/n/9 nlmod <- nls(y ~ Const + A * exp(B * x), start=list(Const=100 , A=10, B=1))[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 7129--7129 [] \T1/pcr/m/n/10 method = c("logistic", "probit", "loglog", "cloglog", "c auchit"))[] [2288] Underfull \hbox (badness 3138) in paragraph at lines 7207--7213 []\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 ) = [2289] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7277--7277 []\T1/pcr/m/n/9 house.plr <- polr(Sat ~ Infl + Type + Cont, weights = Freq, da ta = housing)[] [2290] [2291] Underfull \hbox (badness 1389) in paragraph at lines 7386--7389 []\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, [2292] [2293] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7516--7516 []\T1/pcr/m/n/9 fm <- lqs(stack.loss ~ ., data = stackloss, method = "S", nsam p = "exact")[] [2294] Overfull \hbox (24.78088pt too wide) in paragraph at lines 7581--7581 [] \T1/pcr/m/n/10 method = c("plug-in", "predictive", "debiased", "looC V"), ...)[] [2295] [2296] [2297] [2298] [2299] [2300] Underfull \hbox (badness 4686) in paragraph at lines 8019--8021 []\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 [2301] [2302] Overfull \hbox (6.78088pt too wide) in paragraph at lines 8138--8138 [] \T1/pcr/m/n/10 maxit = 20, acc = 1e-4, test.vec = "resid", lqs.control = NULL)[] Underfull \hbox (badness 1590) in paragraph at lines 8162--8166 []\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 [2303] [2304] [2305] [2306] [2307] [2308] [2309] [2310] [2311] [2312] [2313] [2314] [2315] [2316] [2317] [2318] [2319] [2320] [2321] [2322] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9542--9542 []\T1/pcr/m/n/10 summary(object, method = c("XtX", "XtWX"), correlation = FALS E, ...)[] [2323] Underfull \hbox (badness 2035) in paragraph at lines 9654--9656 []\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 9669--9672 []\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), [2324] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9751--9751 []\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 9753--9753 []\T1/pcr/m/n/10 theta.ml(y, mu, n, weights, limit = 10, eps = .Machine$double .eps^0.25,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9756--9756 []\T1/pcr/m/n/10 theta.mm(y, mu, dfr, weights, limit = 10, eps = .Machine$doub le.eps^0.25)[] [2325] [2326] [2327] [2328] [2329] [2330] [2331] [2332] [2333] [2334] [2335] [2336] [2337]) (./Matrix-pkg.tex [2338] 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 [2339] 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 [2340] 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 [2341] Underfull \hbox (badness 10000) in paragraph at lines 256--259 []\T1/ptm/m/n/10 these three meth-ods are sim-ply us-ing Underfull \hbox (badness 10000) in paragraph at lines 262--264 []\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 [2342] [2343] Overfull \hbox (15.18042pt too wide) in paragraph at lines 445--445 [] \T1/pcr/m/n/9 band(sm5, -1, 1)# "dsyMatrix": symmetric band preserves sym metry property[] [2344] Underfull \hbox (badness 5119) in paragraph at lines 488--492 []\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 492--497 [][][]\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 522--522 []\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 524--524 []\T1/pcr/m/n/9 s2 <- bandSparse(13, k = c(0:2, 6), diag = c(diags, diags[2]) , symm=TRUE)[] [2345] Overfull \hbox (15.18042pt too wide) in paragraph at lines 533--533 []\T1/pcr/m/n/9 lLis <- lapply(list(rpois(20, 2), rpois(20,1), rpois(20,3))[c( 1:3,2:3,3:2)],[] [2346] Overfull \hbox (52.98038pt too wide) in paragraph at lines 647--647 []\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:[] Overfull \hbox (96.18033pt too wide) in paragraph at lines 648--648 []\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 649--649 []\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}"}.[] [2347] Overfull \hbox (31.3804pt too wide) in paragraph at lines 662--662 [] \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 663--663 [] \T1/pcr/m/n/9 i = as.vector(matrix(0L:(M-1L), nrow=k)[, rep(seq_len( N), each=k)]),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 668--668 []\T1/pcr/m/n/9 l12 <- replicate(12, matrix(rpois(16, lambda = 6.4), 4,4), sim plify=FALSE)[] [2348] Underfull \hbox (badness 1874) in paragraph at lines 737--740 []\T1/ptm/m/n/10 The orig-i-nal LA-PACK source code, in-clud-ing doc-u-men-ta-t ion; [][]$\T1/pcr/m/n/10 https : / / netlib . org / [2349] [2350] Underfull \hbox (badness 1107) in paragraph at lines 859--864 \T1/ptm/m/n/10 sity'' of []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/ 10 y[]\T1/ptm/m/n/10 , see e.g., the \T1/phv/m/n/10 R \T1/ptm/m/n/10 code in [] \T1/pcr/m/n/10 selectMethod(cbind2, Underfull \hbox (badness 10000) in paragraph at lines 890--895 []\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: [2351] Overfull \hbox (72.78088pt too wide) in paragraph at lines 954--954 []\T1/pcr/m/n/10 ## solve(a, b, system = c("A","LDLt","LD","DLt","L","Lt","D ","P","Pt"), ...)[] [2352] Underfull \hbox (badness 3612) in paragraph at lines 1041--1044 []\T1/pcr/m/n/10 signature(from = "CHMfactor", to = "pMatrix") []\T1/ptm/m/n/10 re-turns the per-mu-ta-tion [2353]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cho l}) has been already used, duplicate ignored \relax l.1141 ...- 'Matrix' S4 Generic and Methods}{chol} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.chol.1}) has been already used, duplic ate ignored \relax l.1141 ...- 'Matrix' S4 Generic and Methods}{chol} [2354] [2355] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1288--1288 []\T1/pcr/m/n/9 ## --> see Cholesky() and its examples, for the pivot structur e & factorization[] [2356] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1383--1383 []\T1/pcr/m/n/10 Cholesky(A, perm = TRUE, LDL = !super, super = FALSE, Imult = 0, ...) Underfull \hbox (badness 2277) in paragraph at lines 1411--1414 []\T1/ptm/m/n/10 This is a generic func-tion with spe-cial meth-ods for dif-fer -ent types of ma-tri-ces. Use [2357] [2358] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1485--1485 []\T1/pcr/m/n/9 ## hence, the identical() check *should* work, but fails on so me GOTOblas:[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1499--1499 []\T1/pcr/m/n/9 dq <- function(ch) paste(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 "\TS1/p cr/m/n/9 '\T1/pcr/m/n/9 ,ch,\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 "\TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 , sep="") ## dQuote() gives bad plots[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 1507--1507 []\T1/pcr/m/n/9 (opts <- expand.grid(perm = c(TRUE,FALSE), LDL = c(TRUE,FALSE) , super = c(FALSE,TRUE)))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1516--1516 []\T1/pcr/m/n/9 str(re <- lapply(rr, expand), max.level=2) ## each has a \TS1/ pcr/m/n/9 '\T1/pcr/m/n/9 P\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and a \TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 L\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 matrix[] [2359] Underfull \hbox (badness 10000) in paragraph at lines 1552--1559 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 new("Cholesky", ...) []\T1/ptm/m/n/10 or Underfull \hbox (badness 4673) in paragraph at lines 1552--1559 []\T1/pcr/m/n/10 new("BunchKaufman", ...)[]\T1/ptm/m/n/10 , etc, or rather by c alls of the form [][][]\T1/pcr/m/n/10 chol[][][](pm) []\T1/ptm/m/n/10 or Underfull \hbox (badness 1783) in paragraph at lines 1587--1591 []\T1/ptm/m/n/10 Both these fac-tor-iza-tions can \T1/ptm/m/it/10 di-rectly \T1 /ptm/m/n/10 be treated as (tri-an-gu-lar) ma-tri-ces, as they ex-tend Underfull \hbox (badness 1221) in paragraph at lines 1603--1609 \T1/ptm/m/n/10 ply an $\OML/cmm/m/it/10 n \OMS/cmsy/m/n/10 ^^B \OML/cmm/m/it/10 n$ \T1/ptm/m/n/10 nu-meric [][][]\T1/pcr/m/n/10 matrix[][][][]\T1/ptm/m/n/10 . Hence, for com-pat-i-bil-ity, the []\T1/pcr/m/n/10 "Cholesky" []\T1/ptm/m/n/10 and [2360]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.col Sums}) has been already used, duplicate ignored \relax l.1644 ... Row and Column Sums and Means}{colSums} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.colSums.1}) has been already used, dup licate ignored \relax l.1644 ... Row and Column Sums and Means}{colSums} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.colMeans}) has been already used, dupl icate ignored \relax l.1645 \aliasA{colMeans}{colSums}{colMeans} pdfTeX warning (ext4): destination w ith the same identifier (name{Rfn.rowMeans}) has been already used, duplicate i gnored \relax l.1658 \aliasA{rowMeans}{colSums}{rowMeans} pdfTeX warning (ext4): destination w ith the same identifier (name{Rfn.rowSums}) has been already used, duplicate ig nored \relax l.1665 \aliasA{rowSums}{colSums}{rowSums} [2361] Underfull \hbox (badness 2922) in paragraph at lines 1715--1719 []\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 1715--1719 \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 1726--1729 [][][]\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 [2362] [2363] Underfull \hbox (badness 3547) in paragraph at lines 1880--1883 []\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 [2364] [2365] [2366] [2367] [2368] Underfull \hbox (badness 7379) in paragraph at lines 2383--2385 []\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 [2369] [2370] [2371] Underfull \hbox (badness 4846) in paragraph at lines 2608--2612 []\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 2613--2617 []\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 Underfull \hbox (badness 10000) in paragraph at lines 2620--2623 []\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 dgCMatrix[][][] []\T1/ptm/m/n/10 or the su-per-classes [][][]\T1/pcr/m/n/10 dsparseMatrix[][][] []\T1/ptm/m/n/10 a nd [][][]\T1/pcr/m/n/10 TsparseMatrix[][][][]\T1/ptm/m/n/10 ; [2372] Underfull \hbox (badness 5231) in paragraph at lines 2657--2662 []\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 2668--2668 []\T1/pcr/m/n/10 .sparseDiagonal(n, x = NULL, uplo = "U", shape = "t", unitri = TRUE, kind, cols)[] [2373] Underfull \hbox (badness 10000) in paragraph at lines 2724--2727 []\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 2724--2727 []\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- [2374] Underfull \hbox (badness 3646) in paragraph at lines 2821--2824 []\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 2856--2860 []\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 2865--2871 []\T1/pcr/m/n/10 signature(e1 = "ddiMatrix", e2="denseMatrix")[]\T1/ptm/m/n/10 : the re-sult is from class [2375] Underfull \hbox (badness 10000) in paragraph at lines 2872--2876 []\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 2882--2886 [][][]\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 [2376] [2377] [2378] Underfull \hbox (badness 10000) in paragraph at lines 3136--3138 []\T1/pcr/m/n/10 signature(x = "dMatrix", digits = "numeric")[]\T1/ptm/m/n/10 : this group con-tains [2379] [2380] Overfull \hbox (69.18036pt too wide) in paragraph at lines 3276--3276 []\T1/pcr/m/n/9 stopifnot(all.equal(S9p0, S9p))# same as as default, but diffe rent from the random one[] [2381] Underfull \hbox (badness 2469) in paragraph at lines 3386--3389 []\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 [2382] Underfull \hbox (badness 10000) in paragraph at lines 3409--3414 []\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 3409--3414 [][][]\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 3415--3424 \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 3415--3424 \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", [2383] Underfull \hbox (badness 10000) in paragraph at lines 3541--3545 []\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 3541--3545 []\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 , [2384] Underfull \hbox (badness 1571) in paragraph at lines 3591--3594 []\T1/pcr/m/n/10 signature(x = "dsCMatrix", pivot = "logical")[]\T1/ptm/m/n/10 : Re-turns (and stores) the [2385] [2386] Underfull \hbox (badness 10000) in paragraph at lines 3739--3744 []\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 Underfull \hbox (badness 6961) in paragraph at lines 3739--3744 \T1/ptm/m/n/10 class []\T1/pcr/m/n/10 "dsparseMatrix" []\T1/ptm/m/n/10 or []\T1 /pcr/m/n/10 "RsparseMatrix"[]\T1/ptm/m/n/10 ; class []\T1/pcr/m/n/10 "compMatri x" []\T1/ptm/m/n/10 by class Underfull \hbox (badness 1400) in paragraph at lines 3751--3754 []\T1/pcr/m/n/10 signature(x = "dsRMatrix", uplo = "character")[]\T1/ptm/m/n/10 : if []\T1/pcr/m/n/10 uplo == [2387] Underfull \hbox (badness 10000) in paragraph at lines 3802--3804 []\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 3838--3841 []\T1/pcr/m/n/10 signature(x = "dspMatrix", type = "character")[]\T1/ptm/m/n/10 , or []\T1/pcr/m/n/10 x = "dsyMatrix" [2388] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3883--3883 []\T1/pcr/m/n/9 stopifnot(all(S1 == S2)) # equal "seen as matrix", but differ internally :[] [2389] [2390] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3989--3989 []\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 4043--4047 []\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 4052--4055 []\T1/pcr/m/n/10 signature(x = "dtpMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : Ma-trix mul-ti-pli-ca-tion; [2391] Underfull \hbox (badness 10000) in paragraph at lines 4055--4059 []\T1/pcr/m/n/10 signature(x = "dtpMatrix", logarithm = "logical")[]\T1/ptm/m/n /10 : the [2392] [2393] Underfull \hbox (badness 2065) in paragraph at lines 4224--4228 []\T1/pcr/m/n/10 signature(a = "dtrMatrix", b = "....")[]\T1/ptm/m/n/10 efficie ntely use a ``for-ward-solve'' or [2394] [2395] [2396] [2397] Overfull \hbox (112.38031pt too wide) in paragraph at lines 4481--4481 []\T1/pcr/m/n/9 str(jgl009 <- ## https://math.nist.gov/MatrixMarket/data/Harwe ll-Boeing/counterx/counterx.html[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 4488--4488 [] \T1/pcr/m/n/9 readHB(gzcon(url("https://www.cise.ufl.edu/research/sparse/RB /Boeing/msc00726.tar.gz"))))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4492--4492 []\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 4495--4495 []\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)[] Overfull \hbox (58.38037pt too wide) in paragraph at lines 4505--4505 []\T1/pcr/m/n/9 ## has columns (i, j, x) -> we can use via do.call() as argume nts to sparseMatrix():[] [2398] [2399] [2400] Underfull \hbox (badness 2237) in paragraph at lines 4683--4688 []\T1/ptm/m/n/10 a string ([]\T1/pcr/m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n /10 "R"[]\T1/ptm/m/n/10 , or []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 ) spec-i-fy-i ng the stor-age of the re-sult as Underfull \hbox (badness 10000) in paragraph at lines 4701--4703 []\T1/ptm/m/n/10 a string, one of []\T1/pcr/m/n/10 "trace", "sumLog", "prod", " min", "max", [2401] [2402] [2403] [2404] Underfull \hbox (badness 10000) in paragraph at lines 5033--5038 []\T1/ptm/m/n/10 Classes [][][]\T1/pcr/m/n/10 compMatrix[][][][]\T1/ptm/m/n/10 , and the non-general vir-tual classes: [][][]\T1/pcr/m/n/10 symmetricMatrix[][ ][][]\T1/ptm/m/n/10 , [2405] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5114--5114 []\T1/pcr/m/n/9 if(isTRUE(try(require(graph)))) { ## super careful .. for "che cking reasons" [2406] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5116--5116 [] \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 5120--5120 [] \T1/pcr/m/n/9 show(a2 <- sparseMatrix(i= c(1:4,4), j=c(2:4,1:2), x = TRUE, dimnames=dns))[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5127--5127 [] \T1/pcr/m/n/9 a. <- sparseMatrix(i= 4:1, j=1:4, dimnames=list(n4,n4), give C=FALSE) # no \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 x\TS1/pcr/m/n/9 '[] [2407] [2408] Underfull \hbox (badness 4120) in paragraph at lines 5266--5269 []\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 5284--5284 []\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 5304--5304 []\T1/pcr/m/n/9 ## Using (xlim,ylim) has advantage : matrix dimension and (col /row) indices:[] [2409] Overfull \hbox (36.7804pt too wide) in paragraph at lines 5310--5310 [] \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 5311--5311 [] \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 5315--5315 []\T1/pcr/m/n/9 image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd=3, bor der.col = adjustcolor("skyblue", 1/2))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5323--5323 []\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 5326--5326 [] \T1/pcr/m/n/9 ## and now look at the *.png image in a viewer you can easi ly zoom in and out[] [2410] Underfull \hbox (badness 1817) in paragraph at lines 5420--5429 []\T1/ptm/m/n/10 While ``row-indexing'' (of more than one row \T1/ptm/m/it/10 o r \T1/ptm/m/n/10 us-ing []\T1/pcr/m/n/10 drop=FALSE[]\T1/ptm/m/n/10 ) stays wit hin the Underfull \hbox (badness 10000) in paragraph at lines 5462--5464 []\T1/pcr/m/n/10 signature(x = "matrix", y = "indMatrix") []\T1/ptm/m/n/10 and other sig-na-tures (use Underfull \hbox (badness 7081) in paragraph at lines 5464--5467 []\T1/pcr/m/n/10 signature(from = "integer", to = "indMatrix")[]\T1/ptm/m/n/10 : This en-ables typ-i-cal [2411] Underfull \hbox (badness 4556) in paragraph at lines 5470--5477 []\T1/pcr/m/n/10 signature(from = "list", to = "indMatrix")[]\T1/ptm/m/n/10 : T he list must have two Underfull \hbox (badness 3302) in paragraph at lines 5488--5491 []\T1/pcr/m/n/10 signature(X = "indMatrix", Y = "indMatrix")[]\T1/ptm/m/n/10 : re-turn the kro-necker [2412] [2413] [2414] [2415] Overfull \hbox (138.78088pt too wide) in paragraph at lines 5872--5872 []\T1/pcr/m/n/10 isSymmetric(object, tol = 100 * .Machine$double.eps, tol1 = 8 * tol, checkDN = TRUE, ...)[] [2416] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5878--5878 []\T1/pcr/m/n/10 isSymmetric(object, tol = 100 * .Machine$double.eps, checkDN = TRUE, ...)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5937--5937 []\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 5941--5941 []\T1/pcr/m/n/9 showMethods("isSymmetric", includeDefs = TRUE) # includes S3 g eneric from base[] [2417] Overfull \hbox (31.3804pt too wide) in paragraph at lines 6033--6033 []\T1/pcr/m/n/9 isTriangular(as(M, "generalMatrix")) # still triangular, even if not "formally"[] [2418] Overfull \hbox (18.78088pt too wide) in paragraph at lines 6058--6058 []\T1/pcr/m/n/10 KhatriRao(X, Y = X, FUN = "*", sparseY = TRUE, make.dimnames = FALSE) [2419] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6138--6138 []\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 6139--6139 [] \T1/pcr/m/n/9 all(K2 <- KhatriRao(zm, nd) == 0), identical(dim(K2) , c(12L, 4L)))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6146--6146 [] \T1/pcr/m/n/9 identical(dimnames(KhatriRao(m, d0, make.dimnames=TRUE)), di mnames(Kmd)))[] [2420] [2421] Underfull \hbox (badness 1062) in paragraph at lines 6307--6310 []\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 [2422] Underfull \hbox (badness 6063) in paragraph at lines 6333--6336 []\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 [2423] Underfull \hbox (badness 2635) in paragraph at lines 6478--6483 []\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 6478--6483 \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 6486--6489 []\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., [2424] Underfull \hbox (badness 10000) in paragraph at lines 6553--6563 []\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 6553--6563 [][][]\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 [2425] Underfull \hbox (badness 3179) in paragraph at lines 6635--6638 []\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 [2426] Underfull \hbox (badness 10000) in paragraph at lines 6720--6723 []\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., [2427] Underfull \hbox (badness 10000) in paragraph at lines 6781--6784 []\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., [2428] Underfull \hbox (badness 1430) in paragraph at lines 6855--6861 \T1/ptm/m/n/10 should be sig-nalled when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is sin-gu-lar. When []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is sin-gu-lar, []\T1/pcr/ m/n/10 lu(x, Underfull \hbox (badness 1675) in paragraph at lines 6880--6883 []\T1/pcr/m/n/10 lu() []\T1/ptm/m/n/10 is a generic func-tion with spe-cial met h-ods for dif-fer-ent types of ma-tri-ces. Use [2429] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6952--6952 [] \T1/pcr/m/n/9 # q is a 0-based permutation o f the columns[] [2430] [2431] Underfull \hbox (badness 10000) in paragraph at lines 7092--7095 []\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 7114--7116 []\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) [2432] [2433] [2434]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.det}) has been already used, duplicate ignored \relax l.7305 \aliasA{det}{Matrix-class}{det} Underfull \hbox (badness 1337) in paragraph at lines 7393--7396 []\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 7406--7409 [2435] Underfull \hbox (badness 10000) in paragraph at lines 7415--7417 []\T1/pcr/m/n/10 signature(from = "ANY", to = "Matrix")[]\T1/ptm/m/n/10 : This re-lies on a cor-rect [2436]pdfTeX warning (ext4): destination with the same identifier (name{Rfn..Rp cent.*.Rpcent.}) has been already used, duplicate ignored \relax l.7478 ...*\%}{matrix-products}{.Rpcent.*.Rpcent.} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.crossprod}) has been already used, dup licate ignored \relax l.7575 ...A{crossprod}{matrix-products}{crossprod} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.tcrossprod}) has been already used, du plicate ignored \relax l.7676 ...tcrossprod}{matrix-products}{tcrossprod} Underfull \hbox (badness 1881) in paragraph at lines 7777--7783 \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 [2437] Underfull \hbox (badness 10000) in paragraph at lines 7850--7853 []\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 7853--7858 []\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 7853--7858 []\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 7858--7862 \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 7868--7869 []\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and other sig-na- [2438] [2439] Underfull \hbox (badness 1062) in paragraph at lines 8043--8046 []\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 [2440] Underfull \hbox (badness 6063) in paragraph at lines 8075--8078 []\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 [2441] Underfull \hbox (badness 3312) in paragraph at lines 8131--8133 []\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 <- [2442] [2443] Overfull \hbox (85.38034pt too wide) in paragraph at lines 8233--8233 [] \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 8273--8273 []\T1/pcr/m/n/9 stopifnot(all.equal(ncr, ncF))# norm type does not matter at a ll in this example[] Underfull \vbox (badness 10000) has occurred while \output is active [2444] Underfull \hbox (badness 2635) in paragraph at lines 8329--8334 []\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 8329--8334 \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 8337--8340 []\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., [2445] Underfull \hbox (badness 2521) in paragraph at lines 8406--8412 []\T1/pcr/m/n/10 signature(from = "matrix", to = "nMatrix")[]\T1/ptm/m/n/10 : N ote that these co-er-cions [2446] Underfull \hbox (badness 1867) in paragraph at lines 8517--8519 []\T1/ptm/m/n/10 fast sim- [2447]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.nor m}) has been already used, duplicate ignored \relax l.8557 \HeaderA{norm}{Matrix Norms}{norm} pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.norm.1}) has been already used, duplicate ignor ed \relax l.8557 \HeaderA{norm}{Matrix Norms}{norm} [2448] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8650--8650 []\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 8651--8651 []\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 8652--8652 []\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 8708--8718 []\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 , [2449] Underfull \hbox (badness 3179) in paragraph at lines 8779--8782 []\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 [2450] Underfull \hbox (badness 10000) in paragraph at lines 8859--8862 []\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., [2451] Underfull \hbox (badness 10000) in paragraph at lines 8923--8926 []\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., [2452] [2453] Underfull \hbox (badness 10000) in paragraph at lines 9018--9019 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "missing", dr op = Underfull \hbox (badness 10000) in paragraph at lines 9019--9020 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "missing", drop = Underfull \hbox (badness 10000) in paragraph at lines 9020--9021 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "missing", drop = Underfull \hbox (badness 10000) in paragraph at lines 9021--9022 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "missing", dro p = Underfull \hbox (badness 10000) in paragraph at lines 9022--9023 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "missing", dr op = Underfull \hbox (badness 10000) in paragraph at lines 9023--9024 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9024--9025 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9025--9026 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9026--9027 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9027--9028 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9028--9029 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9029--9030 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9030--9031 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9031--9032 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9032--9033 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9033--9034 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "missing", dr op = Underfull \hbox (badness 10000) in paragraph at lines 9034--9035 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "missing", drop = Underfull \hbox (badness 10000) in paragraph at lines 9035--9036 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "missing", drop = Underfull \hbox (badness 10000) in paragraph at lines 9036--9037 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "missing", dro p = Underfull \hbox (badness 10000) in paragraph at lines 9037--9038 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "missing", dr op = [2454] Underfull \hbox (badness 10000) in paragraph at lines 9038--9039 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9039--9040 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9040--9041 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9041--9042 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9042--9043 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "NULL", drop = Underfull \hbox (badness 10000) in paragraph at lines 9043--9044 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "missing", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9044--9045 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "NULL", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9045--9046 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "index", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9046--9047 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "matrix", j = "index", drop = Underfull \hbox (badness 10000) in paragraph at lines 9047--9048 []\T1/pcr/m/n/10 signature(x = "packedMatrix", i = "lMatrix", j = "index", drop = [2455] Underfull \hbox (badness 10000) in paragraph at lines 9137--9139 []\T1/pcr/m/n/10 signature(x = "matrix", y = "pMatrix") []\T1/ptm/m/n/10 and ot her sig-na-tures (use Underfull \hbox (badness 5008) in paragraph at lines 9139--9142 []\T1/pcr/m/n/10 signature(from = "integer", to = "pMatrix")[]\T1/ptm/m/n/10 : This is en-ables typ-i-cal Underfull \hbox (badness 1558) in paragraph at lines 9145--9149 []\T1/pcr/m/n/10 signature(x = "pMatrix", logarithm="logical")[]\T1/ptm/m/n/10 : Since per-mu-ta- Underfull \hbox (badness 3229) in paragraph at lines 9149--9153 \T1/ptm/m/n/10 trix; note that []\T1/pcr/m/n/10 solve(P) []\T1/ptm/m/n/10 is id en-ti-cal to []\T1/pcr/m/n/10 t(P) []\T1/ptm/m/n/10 for per-mu-ta-tion ma-tri-c es. See [2456] [2457] Overfull \hbox (36.78088pt too wide) in paragraph at lines 9228--9228 [] \T1/pcr/m/n/10 col.names, note.dropping.colnames = TRUE, uniD iag = TRUE,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9231--9231 []\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 9233--9233 [] \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln ames = TRUE,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 9237--9237 []\T1/pcr/m/n/10 printSpMatrix2(x, digits = NULL, maxp = max(100L, getOption(" max.print")),[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9238--9238 [] \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln ames = TRUE,[] Underfull \hbox (badness 3989) in paragraph at lines 9263--9273 []\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 9263--9273 \T1/ptm/m/n/10 be printed, pos-si-bly ab-bre-vi-ated. The de-fault is taken fro m [2458] [2459]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.qr}) has been already used, duplicate ignored \relax l.9364 \aliasA{qr}{qr-methods}{qr} [2460] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9436--9436 []\T1/pcr/m/n/9 stopifnot(identical(dimnames(X), dnX))# some versions changed X\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s dimnames![] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9447--9447 []\T1/pcr/m/n/9 qxrLA <- qr(m(Xr), LAPACK=TRUE) # => qr.fitted(), qr.resid() n ot supported[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 9466--9466 []\T1/pcr/m/n/9 ##----- rank-deficient ("singular") case --------------------- ---------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9474--9474 []\T1/pcr/m/n/9 (X. <- drop0(Q. %*% R.[, qI], tol=tolE))## just = X, incl. cor rect colnames[] Underfull \vbox (badness 10000) has occurred while \output is active [2461] Underfull \hbox (badness 2005) in paragraph at lines 9531--9537 []\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 9548--9551 []\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 [2462] [2463] Overfull \hbox (85.38034pt too wide) in paragraph at lines 9647--9647 []\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 9663--9663 []\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 9669--9669 []\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 9670--9670 []\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.9688 ... the Reciprocal Condition Number}{rcond} [2464] [2465] Overfull \hbox (20.58041pt too wide) in paragraph at lines 9806--9806 []\T1/pcr/m/n/9 rcond(x2 <- cbind(x1, 2:11))# practically 0, since x2 does not have full rank[] [2466] [2467] [2468] Underfull \hbox (badness 2150) in paragraph at lines 9997--10005 \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 [2469] [2470] Underfull \hbox (badness 1558) in paragraph at lines 10137--10140 []\T1/ptm/m/n/10 numeric square Ma-trix (in-her-it-ing from class []\T1/pcr/m/n /10 "Matrix"[]\T1/ptm/m/n/10 ) or tra-di-tional [2471] Overfull \hbox (52.98038pt too wide) in paragraph at lines 10199--10199 [] \T1/pcr/m/n/9 z[order(Mod(z), decreasing=TRUE)]}) , tolerance = 1e-13),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 10203--10203 []\T1/pcr/m/n/9 ## For the faint of heart, we provide Schur() also for traditi onal matrices:[] [2472]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.sol ve}) has been already used, duplicate ignored \relax l.10265 \aliasA{solve}{solve-methods}{solve} Overfull \hbox (48.78088pt too wide) in paragraph at lines 10367--10367 []\T1/pcr/m/n/10 ## solve(a, b, ...) # the two-argument version, almost always preferred to Overfull \hbox (90.78088pt too wide) in paragraph at lines 10379--10379 []\T1/pcr/m/n/10 solve(a, b, system = c("A", "LDLt", "LD", "DLt", "L", "Lt", " D", "P", "Pt"), ...)[] [2473] Underfull \hbox (badness 1616) in paragraph at lines 10414--10426 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 solve []\T1/ptm/m/n/10 meth-ods for a Underfull \hbox (badness 10000) in paragraph at lines 10431--10434 []\T1/ptm/m/n/10 (for all []\T1/pcr/m/n/10 b[]\T1/ptm/m/n/10 ) work via []\T1/p cr/m/n/10 as(a, Underfull \hbox (badness 10000) in paragraph at lines 10440--10447 []\T1/ptm/m/n/10 with ex-tra ar-gu-ment list []\T1/pcr/m/n/10 ( Underfull \hbox (badness 10000) in paragraph at lines 10453--10463 []\T1/ptm/m/n/10 with ex-tra ar-gu-ment list []\T1/pcr/m/n/10 ( Underfull \hbox (badness 3657) in paragraph at lines 10453--10463 \T1/pcr/m/n/10 sparse=FALSE, tol = .Machine$double.eps ) []\T1/ptm/m/n/10 : Che cks if []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 is sym-met-ric, [2474] Underfull \hbox (badness 6032) in paragraph at lines 10480--10484 []\T1/ptm/m/n/10 All these meth-ods first try Cholmod's Underfull \hbox (badness 10000) in paragraph at lines 10487--10489 []\T1/ptm/m/n/10 all end up call-ing LA-PACK rou-tines Underfull \hbox (badness 10000) in paragraph at lines 10510--10511 []\T1/ptm/m/n/10 works via []\T1/pcr/m/n/10 as(b, Underfull \hbox (badness 10000) in paragraph at lines 10516--10518 []\T1/ptm/m/n/10 these meth-ods typ-i-cally use Underfull \hbox (badness 10000) in paragraph at lines 10520--10521 []\T1/ptm/m/n/10 all work via []\T1/pcr/m/n/10 as(a, Underfull \hbox (badness 10000) in paragraph at lines 10528--10531 [][][]\T1/pcr/m/n/10 solve[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lu[][][ ][]\T1/ptm/m/n/10 , and class doc-u-men-ta-tions [][][]\T1/pcr/m/n/10 CHMfactor [][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 sparseLU[][][][]\T1/ptm/m/n/10 , and Overfull \hbox (4.38043pt too wide) in paragraph at lines 10547--10547 []\T1/pcr/m/n/9 image(ia0 <- solve(a)) # checker board, dense [but really, a i s singular!][] Overfull \hbox (25.98041pt too wide) in paragraph at lines 10551--10551 [] \T1/pcr/m/n/9 ## Fails on 32-bit [Fedora 19, R 3.0.2] from Matrix 1.1-0 on [FIXME ??] only[] [2475] Underfull \hbox (badness 10000) in paragraph at lines 10572--10575 []\T1/ptm/m/n/10 Construct a sparse model or ``de-sign'' ma-trix, from a for-mu la and data frame Overfull \hbox (6.78088pt too wide) in paragraph at lines 10589--10589 [] \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveCs parse)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10591--10591 [] \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveCs parse,[] Underfull \hbox (badness 1648) in paragraph at lines 10600--10602 []\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 10608--10611 []\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 10608--10611 []\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 [2476] Underfull \hbox (badness 10000) in paragraph at lines 10619--10623 []\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 10619--10623 []\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 Underfull \hbox (badness 1668) in paragraph at lines 10634--10639 [][][]\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 [2477] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10714--10714 [] \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 10715--10715 [] \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 10716--10716 [] \T1/pcr/m/n/9 is(M <- fac2sparse(f12, drop= TRUE),"CsparseMatrix"), dim(M) == c(0,12),[] [2478] Overfull \hbox (85.38034pt too wide) in paragraph at lines 10816--10816 []\T1/pcr/m/n/9 stopifnot(all.equal(pA, pLU, tolerance = 1e-12)) # (incl. perm uted row- and column-names)[] [2479] Underfull \hbox (badness 10000) in paragraph at lines 10897--10899 []\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 10904--10904 [] \T1/pcr/m/n/10 symmetric = FALSE, triangular = FALSE, index1 = TRUE,[] [2480] Underfull \hbox (badness 2261) in paragraph at lines 10942--10948 \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 [2481] Underfull \hbox (badness 10000) in paragraph at lines 11031--11034 []\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 11043--11043 []\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 11047--11047 []\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 11048--11048 []\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 11053--11053 []\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 11056--11056 []\T1/pcr/m/n/9 ## i, j and x can be in an arbitrary order, as long as they ar e consistent[] [2482] Overfull \hbox (15.18042pt too wide) in paragraph at lines 11079--11079 []\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 11080--11080 []\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 11106--11106 []\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 11108--11108 [] \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 11110--11110 [] \T1/pcr/m/n/9 XX <- sparseMatrix(j = X@ja, p = X@ia - 1L, x = X@ra, dims = X@dimension)[] Underfull \vbox (badness 10000) has occurred while \output is active [2483] Underfull \hbox (badness 6842) in paragraph at lines 11207--11210 []\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 [2484] Underfull \hbox (badness 10000) in paragraph at lines 11242--11246 [][][]\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 pdfTeX warning (ext4): destination with the same identifier (name{Rfn.qr.Q}) ha s been already used, duplicate ignored \relax l.11282 \aliasA{qr.Q}{sparseQR-class}{qr.Q} [2485] [2486] Underfull \hbox (badness 10000) in paragraph at lines 11411--11413 []\T1/pcr/m/n/10 signature(a = "sparseQR", b = "ANY")[]\T1/ptm/m/n/10 : For []\ T1/pcr/m/n/10 solve(a,b)[]\T1/ptm/m/n/10 , sim-ply uses Overfull \hbox (58.38037pt too wide) in paragraph at lines 11439--11439 [] \T1/pcr/m/n/9 qc <- qr.coef (qrm, y); qc. <- qr.coef (qrm, y.) # 2nd fai led in Matrix <= 1.1-0[] [2487] Underfull \hbox (badness 5036) in paragraph at lines 11467--11469 []\T1/ptm/m/n/10 vector of the non zero en-tries; may be miss-ing in which case a Underfull \hbox (badness 2970) in paragraph at lines 11578--11584 []\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 11578--11584 \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 , [2488] Underfull \hbox (badness 10000) in paragraph at lines 11629--11632 []\T1/pcr/m/n/10 signature(x = "sparseVector", mode = "character") []\T1/ptm/m/ n/10 co-erces sparse [2489] Underfull \hbox (badness 10000) in paragraph at lines 11669--11674 []\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 11684--11686 [][][]\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(*, [2490] [2491] Underfull \hbox (badness 2310) in paragraph at lines 11809--11815 [][][]\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, [2492] [2493] Underfull \hbox (badness 2591) in paragraph at lines 11923--11928 \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 Underfull \hbox (badness 2057) in paragraph at lines 11999--12001 []\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., [2494] [2495] Underfull \hbox (badness 6641) in paragraph at lines 12086--12089 []\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 12131--12135 []\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 12131--12135 \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 [2496] [2497] Underfull \hbox (badness 7649) in paragraph at lines 12238--12240 []\T1/ptm/m/n/10 a sparse ma-trix stored in triplet form, i.e., in-her-it-ing f rom class [2498] [2499] Underfull \hbox (badness 10000) in paragraph at lines 12356--12358 []\T1/ptm/m/n/10 typically a []\T1/pcr/m/n/10 "packedMatrix"[]\T1/ptm/m/n/10 , though [2500] Underfull \hbox (badness 1668) in paragraph at lines 12485--12488 [][][]\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 [2501] Underfull \hbox (badness 7362) in paragraph at lines 12536--12538 []\T1/ptm/m/n/10 any \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject, co-er-ca-ble to a sparse ma-trix (i.e., of sub-class of [2502] Overfull \hbox (15.18042pt too wide) in paragraph at lines 12574--12574 []\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 12575--12575 []\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)[] [2503] [2504] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12729--12729 [] \T1/pcr/m/n/9 sapply(rho, function(x) c(2* determinant(update(C1, nWC, 1/ x))$modulus))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12734--12734 [] \T1/pcr/m/n/9 sapply(rho, function(x) c(2* determinant(update(C2, nWC, 1/ x))$modulus))[] [2505] Underfull \hbox (badness 6910) in paragraph at lines 12940--12942 []\T1/ptm/m/n/10 is cur-rently a sim-ple fall-back [2506] Package hyperref Warning: Glyph not defined in PU encoding, (hyperref) removing `\Rpercent' on input line 12987. Package hyperref Warning: Glyph not defined in PU encoding, (hyperref) removing `\Rpercent' on input line 12987. [2507] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13117--13117 []\T1/pcr/m/n/9 L. <- L; L.[1:2,1] <- TRUE; L.@x[1:2] <- FALSE; L. # has "zero s" to drop0()[] [2508]) (./boot-pkg.tex Chapter 18. [2509] [2510] [2511] [2512] [2513] [2514] [2515] 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"), [2516] 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- [2517] [2518] [2519] 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 , [2520] 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 [2521] [2522] [2523] 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 [2524] [2525] [2526] [2527] 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- [2528] [2529] [2530] [2531] [2532] 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), [2533] [2534] [2535] Underfull \vbox (badness 10000) has occurred while \output is active [2536] 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),[] [2537] 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. [2538] [2539] [2540] 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 [2541] 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 , [2542] [2543] 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 [2544] [2545] [2546] [2547] [2548] 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,[] [2549] [2550] [2551] 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 , [2552] 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)) [2553] [2554] [2555] 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 [2556] [2557] [2558] [2559] [2560] [2561] [2562] 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)[] [2563] [2564] 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])[] [2565] [2566] [2567] [2568] 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 [2569] [2570] 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 [2571] [2572] [2573] [2574] [2575] [2576] [2577] [2578] [2579] 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 [2580] [2581] [2582] [2583] 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 [2584] 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])[] [2585] [2586] [2587] [2588] [2589] [2590] [2591] [2592] 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][] [2593] 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 [2594] 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 [2595] [2596] [2597] [2598] 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). [2599] [2600] 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[] [2601] [2602] [2603] 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 [2604] [2605] 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),[] [2606] [2607] [2608] [2609] [2610] [2611] [2612] [2613]) (./class-pkg.tex [2614] Chapter 19. [2615] [2616] [2617] [2618] [2619] [2620] [2621] [2622] [2623] [2624] [2625] [2626] [2627] [2628] [2629] [2630]) (./cluster-pkg.tex Chapter 20. [2631] [2632] [2633] 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]))[] [2634] [2635] Underfull \vbox (badness 10000) has occurred while \output is active [2636] [2637] 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, ...)[] [2638] [2639] 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)[] [2640] Underfull \hbox (badness 3078) in paragraph at lines 691--694 []\T1/ptm/m/n/10 Setting this to []\T1/pcr/m/n/10 FALSE []\T1/ptm/m/n/10 saves mem-ory (and hence time), but dis-ables [2641] [2642] Underfull \hbox (badness 2941) in paragraph at lines 791--794 [][][]\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 , [2643] Overfull \hbox (9.78043pt too wide) in paragraph at lines 834--834 []\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 881--883 []\T1/ptm/m/n/10 list with sil-hou-ette width in-for-ma-tion for the best sam-p le, see [2644] Overfull \hbox (24.78088pt too wide) in paragraph at lines 946--946 [] \T1/pcr/m/n/10 arrowArgs = list(col="red3", length=1/16, angle=90, code =3), ...)[] [2645] 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, [2646] [2647] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1121--1121 [] \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 1138--1138 []\T1/pcr/m/n/9 ## You can manually set it before running this : doExtras < - TRUE # or FALSE[] Underfull \vbox (badness 10000) has occurred while \output is active [2648] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1176--1176 []\T1/pcr/m/n/9 plot(gsP.Z, main = "clusGap() ==> k = 1 clust er is optimal")[] Underfull \hbox (badness 4144) in paragraph at lines 1208--1212 []\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 [2649] Overfull \hbox (60.78088pt too wide) in paragraph at lines 1284--1284 [] \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 1290--1290 [] \T1/pcr/m/n/10 round(100 * var.dec, digits = 2), "% of the poin t variability."),[] [2650] [2651] [2652] Underfull \hbox (badness 10000) in paragraph at lines 1477--1480 Underfull \hbox (badness 10000) in paragraph at lines 1494--1498 [][][]\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 1518--1518 []\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 1528--1528 [] \T1/pcr/m/n/9 clusplot(votes.diss, votes.clus, diss = TRUE, labels = 5)# i dent. only points[] [2653] Underfull \hbox (badness 5741) in paragraph at lines 1568--1571 []\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 [2654] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1637--1637 [] \T1/pcr/m/n/10 warnBin = warnType, warnAsym = warnType, warnConst = wa rnType,[] [2655] Underfull \hbox (badness 1552) in paragraph at lines 1686--1688 []\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 1699--1703 []\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 1699--1703 \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 [2656] Underfull \hbox (badness 1540) in paragraph at lines 1775--1783 \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 = [2657] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1867--1867 []\T1/pcr/m/n/9 summary(dfl2 <- daisy(flower, type = list(asymm = c(1, 3), ord ratio = 7)))[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 1886--1886 []\T1/pcr/m/n/10 diana(x, diss = inherits(x, "dist"), metric = "euclidean", st and = FALSE, [2658] [2659] [2660] [2661] [2662] Underfull \hbox (badness 10000) in paragraph at lines 2207--2210 Underfull \hbox (badness 3179) in paragraph at lines 2221--2227 [][][]\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. [2663] [2664] Underfull \hbox (badness 10000) in paragraph at lines 2379--2382 [][][]\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 , [2665] Underfull \hbox (badness 1292) in paragraph at lines 2447--2450 []\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 [2666] Underfull \hbox (badness 6675) in paragraph at lines 2456--2458 []\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 2479--2482 [][][]\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 , [2667] [2668] Overfull \hbox (48.78088pt too wide) in paragraph at lines 2608--2608 []\T1/pcr/m/n/10 medoids(x, clustering, diss = inherits(x, "dist"), USE.NAMES = FALSE, ...) [2669] Overfull \hbox (69.18036pt too wide) in paragraph at lines 2655--2655 [] \T1/pcr/m/n/9 stopifnot(length(cl.k) == nrow(votes.repub), 1 <= cl.k, cl.k <= k, table(cl.k) >= 2)[] [2670] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2760--2760 []\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 ):[] [2671] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2839--2839 [] \T1/pcr/m/n/10 variant = c("original", "o_1", "o_2", "f_3", "f_4", "f_5" , "faster"),[] [2672] [2673] [2674] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3068--3068 []\T1/pcr/m/n/9 ## no _build_ *and* no _swap_ phase: just cluster all obs. aro und (1, 16):[] [2675] [2676] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3171--3171 []\T1/pcr/m/n/9 axis(1, k.best, paste("best",k.best,sep="\n"), col = "red", co l.axis = "red")[] [2677] [2678] [2679] Overfull \hbox (78.78088pt too wide) in paragraph at lines 3367--3367 [] \T1/pcr/m/n/10 sub = paste("Agglomerative Coefficient = ",round(x $ac, digits = 2)),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3368--3368 [] \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty = TRUE, ...)[] [2680] Underfull \hbox (badness 10000) in paragraph at lines 3435--3438 []\T1/ptm/m/n/10 For the den-dro-gram, more flex-i-bil-ity than via []\T1/pcr/m /n/10 pltree() []\T1/ptm/m/n/10 is pro-vided by []\T1/pcr/m/n/10 dg <- [2681] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3485--3485 [] \T1/pcr/m/n/10 sub = paste("Divisive Coefficient = ", round(x$dc, digits = 2)),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3486--3486 [] \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty = TRUE, ...)[] [2682] [2683] [2684] Underfull \hbox (badness 10000) in paragraph at lines 3671--3674 []\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 3671--3674 \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 [2685] Underfull \hbox (badness 10000) in paragraph at lines 3734--3739 [][][]\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 , [2686] Underfull \hbox (badness 1748) in paragraph at lines 3796--3801 \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 3808--3811 [][][]\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 , [2687] [2688] [2689] Underfull \hbox (badness 10000) in paragraph at lines 3993--3996 [][][]\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 , Underfull \hbox (badness 10000) in paragraph at lines 4024--4027 [][][]\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 , [2690] Overfull \hbox (36.78088pt too wide) in paragraph at lines 4077--4077 [] \T1/pcr/m/n/10 digits = getOption("digits"), justify = "none", right = TRUE, ...)[] [2691] Underfull \hbox (badness 2035) in paragraph at lines 4088--4090 []\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 [2692] [2693] [2694] Overfull \hbox (54.78088pt too wide) in paragraph at lines 4281--4281 [] \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 4283--4283 [] \T1/pcr/m/n/10 cex.names = par("cex.axis"), do.n.k = TRUE, do.clus.stat = TRUE, ...)[] [2695] [2696] Overfull \hbox (31.3804pt too wide) in paragraph at lines 4426--4426 []\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 4435--4435 [] \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 4437--4437 [] \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 4440--4440 []\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 4442--4442 [] \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k), do.n.k=FALSE,[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 4449--4449 []\T1/pcr/m/n/9 str(xc1k <- xclara[ sample(nrow(xclara), size = 1000) ,]) # ro wnames == indices[] [2697] [2698] [2699] [2700] [2701] [2702] [2703] Underfull \hbox (badness 10000) in paragraph at lines 4823--4829 []\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 4839--4841 []\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 4852--4852 []\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 4854--4854 []\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)$id.med[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4864--4864 [] \T1/pcr/m/n/9 ## We see 3 + 2 + 2 = 7 clear "outlier"s or "wrong group" o bservations:[] [2704] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4868--4868 [] \T1/pcr/m/n/9 ## Apart from these, what are the robust ranges of indices? - - Robust range:[] [2705]) (./codetools-pkg.tex [2706] Chapter 21. Overfull \hbox (24.78088pt too wide) in paragraph at lines 16--16 [] \T1/pcr/m/n/10 suppressParamUnused = !all, suppressFundefMismatch = FALSE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17--17 [] \T1/pcr/m/n/10 suppressLocalUnused = FALSE, suppressNoLocalFun = !all,[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 18--18 [] \T1/pcr/m/n/10 skipWith = FALSE, suppressUndefined = dfltSuppress Undefined,[] [2707] Underfull \hbox (badness 10000) in paragraph at lines 65--70 []\T1/pcr/m/n/10 checkUsageEnv []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 checkUsage Package []\T1/ptm/m/n/10 are con-ve-nience func-tions that ap-ply [2708] Overfull \hbox (18.78088pt too wide) in paragraph at lines 118--118 []\T1/pcr/m/n/10 makeConstantFolder(..., leaf, handler, call, exit, isLocal, f oldable,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 121--121 []\T1/pcr/m/n/10 makeUsageCollector(fun, ..., name, enterLocal, enterGlobal, e nterInternal,[] [2709] [2710] [2711]) (./foreign-pkg.tex [2712] Chapter 22. Underfull \hbox (badness 10000) in paragraph at lines 33--37 []\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o ut of a Data Underfull \hbox (badness 10000) in paragraph at lines 33--37 \T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able as [][]$\T1/p cr/m/n/10 https : / / support . Underfull \hbox (badness 10000) in paragraph at lines 33--37 \T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap ers / 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 . [2713] 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 [2714] [2715] Underfull \hbox (badness 3601) in paragraph at lines 237--245 []\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 , [2716] Overfull \hbox (12.78088pt too wide) in paragraph at lines 295--295 []\T1/pcr/m/n/10 read.epiinfo(file, read.deleted = FALSE, guess.broken.dates = FALSE, [2717] [2718] [2719] Overfull \hbox (48.78088pt too wide) in paragraph at lines 461--461 [] \T1/pcr/m/n/10 trim_values = TRUE, reencode = NA, use.missings = t o.data.frame,[] [2720] Overfull \hbox (30.78088pt too wide) in paragraph at lines 462--462 [] \T1/pcr/m/n/10 sub = ".", add.undeclared.levels = c("sort", "appen d", "no"),[] Underfull \hbox (badness 2846) in paragraph at lines 505--514 []\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 505--514 \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 505--514 \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 515--518 []\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 515--518 \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 [2721] Underfull \hbox (badness 10000) in paragraph at lines 549--557 []\T1/ptm/m/n/10 URL [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / en-[]us / windows / win32 / intl / Underfull \hbox (badness 7613) in paragraph at lines 567--573 []\T1/ptm/m/n/10 There may be at-tributes []\T1/pcr/m/n/10 "label.table" []\T1/ ptm/m/n/10 and []\T1/pcr/m/n/10 "variable.labels"[]\T1/ptm/m/n/10 . At-tribute [2722] Overfull \hbox (20.58041pt too wide) in paragraph at lines 622--622 []\T1/pcr/m/n/9 ### hence may need some special treatment with appropriate arg ument settings.[] Overfull \hbox (112.38031pt too wide) in paragraph at lines 623--623 []\T1/pcr/m/n/9 ### Expect lots of warnings as value labels (corresponding to R factor labels) are uncomplete,[] [2723] Overfull \hbox (9.78043pt too wide) in paragraph at lines 656--656 []\T1/pcr/m/n/9 ## Long Strings (>255 chars) are imported in consecutive separ ate variables[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 660--660 []\T1/pcr/m/n/9 cat.long.string <- function(x, w=70) cat(paste(strwrap(x, widt h=w), "\n"))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 667--667 []\T1/pcr/m/n/9 long.string <- apply(x[,c("string_500", "STRIN0")], 1, paste, collapse="")[] [2724] [2725] Underfull \hbox (badness 10000) in paragraph at lines 811--812 Overfull \hbox (4.38043pt too wide) in paragraph at lines 821--821 []\T1/pcr/m/n/9 iris.s <- read.systat(system.file("files/Iris.syd", package="f oreign")[1])[] [2726] Underfull \hbox (badness 10000) in paragraph at lines 868--872 []\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o ut of a Data Underfull \hbox (badness 10000) in paragraph at lines 868--872 \T1/ptm/m/n/10 Set in SAS Trans-port (XPORT) For-mat'' avail-able at [][]$\T1/p cr/m/n/10 https : / / support . Underfull \hbox (badness 10000) in paragraph at lines 868--872 \T1/pcr/m/n/10 sas . com / content / dam / SAS / support / en / technical-[]pap ers / Overfull \hbox (74.28088pt too wide) in paragraph at lines 868--872 \T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s et-[]in-[]sas-[]transport-[]xport-[]format . [2727] Overfull \hbox (24.78088pt too wide) in paragraph at lines 899--899 [] \T1/pcr/m/n/10 data.restore(file, print = FALSE, verbose = FALSE, env = .G lobalEnv) [2728] Overfull \hbox (0.78088pt too wide) in paragraph at lines 963--963 []\T1/pcr/m/n/10 write.arff(x, file, eol = "\n", relation = deparse(substitute (x))) [2729] [2730] Underfull \hbox (badness 10000) in paragraph at lines 1075--1076 [][][]$\T1/pcr/m/n/10 https : / / www . clicketyclick . dk / databases / xbase / format / data _ types . Overfull \hbox (24.78088pt too wide) in paragraph at lines 1111--1111 [] \T1/pcr/m/n/10 convert.factors = c("labels", "string", "numeric", "codes"))[] [2731] [2732] Underfull \hbox (badness 10000) in paragraph at lines 1268--1274 []\T1/ptm/m/n/10 The work for this func-tion is done by []\T1/pcr/m/n/10 foreig n:::writeForeignStata[]\T1/ptm/m/n/10 , [2733] Underfull \hbox (badness 2088) in paragraph at lines 1294--1297 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 package="SPSS"[]\T1/ptm/m/n/10 , as a sid e ef-fect, the dec-i-mal in-di-ca-tor is al-ways set by []\T1/pcr/m/n/10 SET [2734]) (./lattice-pkg.tex Chapter 23. [2735] Underfull \hbox (badness 2073) in paragraph at lines 117--121 \T1/ptm/m/n/10 pro-vide a holis-tic in-tro-duc-tion to the Trel-lis paradigm: [ ][]$\T1/pcr/m/n/10 http : / / web . archive . org / Underfull \hbox (badness 10000) in paragraph at lines 117--121 \T1/pcr/m/n/10 web / 20081020164041 / http : / / cm . bell-[]labs . com / cm / ms / departments / sia / [2736] [2737] Overfull \hbox (12.78088pt too wide) in paragraph at lines 286--286 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 290--290 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .xyplot"),[] [2738] Overfull \hbox (42.78088pt too wide) in paragraph at lines 298--298 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defaul t.dotplot"),[] Overfull \hbox (54.78088pt too wide) in paragraph at lines 305--305 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau lt.barchart"),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 313--313 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa ult.stripplot"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 334--334 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 338--338 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .bwplot"),[] [2739] [2740] [2741] [2742] Underfull \hbox (badness 1221) in paragraph at lines 652--655 []\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 [2743] [2744] [2745] [2746] Underfull \hbox (badness 2005) in paragraph at lines 990--1002 []\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 990--1002 \T1/ptm/m/n/10 some-times ap-pro-pri-ate to sup-press drop-ping to pre-serve a use-ful lay-out. [2747] Underfull \hbox (badness 1661) in paragraph at lines 1103--1109 []\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 [2748] [2749] Underfull \hbox (badness 1097) in paragraph at lines 1229--1231 []\T1/ptm/m/n/10 Logical flag, whether leg-end should have a Underfull \hbox (badness 1917) in paragraph at lines 1243--1244 []\T1/ptm/m/n/10 Space be-tween col-umn blocks, in ad-di-tion to [2750] [2751] [2752] Underfull \hbox (badness 1540) in paragraph at lines 1483--1489 []\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 , [2753] Underfull \hbox (badness 10000) in paragraph at lines 1570--1587 [][][]\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 , [2754] Overfull \hbox (36.7804pt too wide) in paragraph at lines 1658--1658 [] \T1/pcr/m/n/9 text = list(lab = as.character(unique(Orchar dSprays$rowpos))),[] [2755] Underfull \hbox (badness 2012) in paragraph at lines 1712--1714 []\T1/ptm/m/n/10 additional ar-gu-ments passed to [][][]\T1/pcr/m/n/10 xyplot[] [][][]\T1/ptm/m/n/10 , which may pass them on to Underfull \hbox (badness 6808) in paragraph at lines 1742--1746 []\T1/ptm/m/n/10 graphical ar-gu-ments, which are pro-cessed and even-tu-ally p assed to [2756] Underfull \hbox (badness 10000) in paragraph at lines 1759--1762 []\T1/ptm/m/n/10 style set-tings be-yond the stan-dard []\T1/pcr/m/n/10 col[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1 /ptm/m/n/10 , etc; see Underfull \hbox (badness 10000) in paragraph at lines 1812--1814 []\T1/ptm/m/n/10 Gabor Grothendieck, Achim Zeileis, Deep-ayan Sarkar and Fe-lix An-drews [2757] [2758] [2759] [2760] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2045--2045 [] \T1/pcr/m/n/10 auto.key = lattice.getOption("default.args")$auto .key,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2058--2058 [] \T1/pcr/m/n/10 lattice.getOption("prepanel.default.densitypl ot"),[] [2761] Underfull \hbox (badness 10000) in paragraph at lines 2128--2131 []\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 2128--2131 []\T1/pcr/m/n/10 lattice.getOption("histogram.breaks") []\T1/ptm/m/n/10 is firs t checked. If [2762] [2763] [2764] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2332--2332 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2336--2336 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .qqmath"),[] [2765] [2766] [2767] [2768] Overfull \hbox (60.78088pt too wide) in paragraph at lines 2676--2676 [] \T1/pcr/m/n/10 panel = if (useRaster) lattice.getOption("panel.lev elplot.raster")[] [2769] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2708--2708 [] \T1/pcr/m/n/10 lattice.getOption("prepanel.default.contourpl ot"),[] Underfull \vbox (badness 10000) has occurred while \output is active [2770] Underfull \hbox (badness 2913) in paragraph at lines 2778--2783 []\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 2778--2783 []\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 [2771] [2772] Underfull \hbox (badness 6758) in paragraph at lines 2906--2910 []\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 2906--2910 \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 2912--2914 []\T1/ptm/m/n/10 Logical flag, passed to [][][]\T1/pcr/m/n/10 rasterGrob[][][] []\T1/ptm/m/n/10 when Underfull \hbox (badness 1609) in paragraph at lines 2964--2970 []\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 2964--2970 \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 2964--2970 \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 2988--2992 []\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 [2773] [2774] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3091--3091 [] \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 3092--3092 [] \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 3093--3093 [] \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 3104--3104 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default. cloud"),[] [2775] Overfull \hbox (66.78088pt too wide) in paragraph at lines 3116--3116 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa ult.wireframe"),[] Underfull \hbox (badness 2913) in paragraph at lines 3174--3181 []\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 3174--3181 []\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 [2776] [2777] [2778] [2779]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.parallel}) has been already used, duplicate ignored \relax l.3462 \aliasA{parallel}{B\_08\_splom}{parallel} [2780] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3504--3504 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default. splom"),[] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3527--3527 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau lt.parallel"),[] [2781] [2782] [2783] [2784] [2785] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3863--3863 []\T1/pcr/m/n/10 oneway(formula, data, location=mean, spread=function(x) sqrt( var(x))) [2786] Underfull \hbox (badness 2277) in paragraph at lines 3949--3953 []\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 3949--3953 \T1/ptm/m/n/10 For back-compatibility, this is ini-tially (when lat-tice is loa ded) set to [2787] [2788] Overfull \hbox (120.78088pt too wide) in paragraph at lines 4046--4046 [] \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 4048--4048 [] \T1/pcr/m/n/10 region = hcl.colors(14, palette = "YlGnBu", re v = TRUE),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 4055--4055 [] \T1/pcr/m/n/10 reference = "gray90", bg = "transparent", fg = " black",[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 4056--4056 [] \T1/pcr/m/n/10 strip.bg = rep("gray95", 7), strip.fg = rep("gra y70", 7),[] [2789] [2790] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4199--4199 []\T1/pcr/m/n/10 trellis.par.set(name, value, ..., theme, warn = TRUE, strict = FALSE) Underfull \hbox (badness 1173) in paragraph at lines 4208--4212 []\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 Underfull \hbox (badness 3219) in paragraph at lines 4235--4237 []\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 4252--4256 []\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 [2791] Underfull \hbox (badness 5161) in paragraph at lines 4317--4321 []\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 4317--4321 \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 [2792] [2793] Underfull \hbox (badness 1067) in paragraph at lines 4435--4445 []\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 4435--4445 []\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 4435--4445 []\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 4435--4445 []\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 4435--4445 []\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 Underfull \hbox (badness 1701) in paragraph at lines 4460--4463 []\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 4463--4465 []\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 [2794] [2795] Underfull \hbox (badness 2932) in paragraph at lines 4606--4611 []\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 , [2796] [2797] [2798] [2799] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4882--4882 []\T1/pcr/m/n/9 p12 <- densityplot( ~ height | voice.part, data = singer, xlab = "Height")[] [2800] [2801] [2802] Underfull \hbox (badness 10000) in paragraph at lines 5069--5072 []\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 . [2803] Underfull \hbox (badness 1442) in paragraph at lines 5201--5204 []\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 [2804] [2805] [2806] [2807] [2808] [2809] Underfull \hbox (badness 3646) in paragraph at lines 5540--5543 [][][]\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 5570--5570 [] \T1/pcr/m/n/10 bg = trellis.par.get("strip.background")$col[wh ich.given],[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5571--5571 [] \T1/pcr/m/n/10 fg = trellis.par.get("strip.shingle")$col[which .given],[] [2810] Underfull \hbox (badness 10000) in paragraph at lines 5659--5662 []\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 5659--5662 []\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 [2811] Underfull \hbox (badness 1635) in paragraph at lines 5685--5690 []\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 [2812] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5836--5836 []\T1/pcr/m/n/10 panel.identify.qqmath(x, distribution, groups, subscripts, la bels,[] [2813] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5850--5850 []\T1/pcr/m/n/10 panel.link.splom(threshold = 18, verbose = getOption("verbose "), ...)[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5851--5851 []\T1/pcr/m/n/10 panel.brush.splom(threshold = 18, verbose = getOption("verbos e"), ...)[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5854--5854 []\T1/pcr/m/n/10 trellis.vpname(name = c("position", "split", "split.location" , "toplevel",[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5857--5857 [] \T1/pcr/m/n/10 "xlab", "ylab", "xlab.top", "ylab.rig ht", "page"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 5859--5859 [] \T1/pcr/m/n/10 side = c("left", "top", "right", "bottom", "in side"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5865--5865 [] \T1/pcr/m/n/10 which.given = lattice.getStatus("current.whi ch.given",[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5866--5866 [] \T1/pcr/m/n/10 prefix = pre fix),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5867--5867 [] \T1/pcr/m/n/10 which.panel = lattice.getStatus("current.whi ch.panel",[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5868--5868 [] \T1/pcr/m/n/10 prefix = pre fix),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5869--5869 [] \T1/pcr/m/n/10 column = lattice.getStatus("current.focus.co lumn",[] Underfull \hbox (badness 10000) in paragraph at lines 5885--5887 []\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 5896--5898 []\T1/ptm/m/n/10 an op-tional vec-tor of la-bels as-so-ci-ated with each point. De-faults to [2814] [2815] Underfull \hbox (badness 2538) in paragraph at lines 6021--6025 \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 6032--6039 []\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 6032--6039 []\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 [2816] [2817] Underfull \hbox (badness 10000) in paragraph at lines 6185--6189 [][][]\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 , [2818] [2819] Underfull \hbox (badness 4242) in paragraph at lines 6332--6337 []\T1/ptm/m/n/10 Graphical pa-ram-e-ters for the bars. By de-fault, the trel-li s pa-ram-e- [2820] [2821] Underfull \hbox (badness 3601) in paragraph at lines 6448--6453 []\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 6448--6453 \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 [2822] Overfull \hbox (60.78088pt too wide) in paragraph at lines 6536--6536 [] \T1/pcr/m/n/10 shade.colors.palette = trellis.par.get("shade.co lors")$palette,[] [2823] [2824] [2825] Underfull \hbox (badness 10000) in paragraph at lines 6735--6739 []\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 6740--6742 []\T1/ptm/m/n/10 numeric, be-tween 0 and 1, giv-ing a min-i-mum sat-u-ra-tion i n [2826] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6836--6836 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Inferno"),[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6839--6839 [] \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 6842--6842 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Harmonic"),[] [2827] [2828] [2829] [2830] [2831] [2832] Underfull \hbox (badness 1320) in paragraph at lines 7204--7211 []\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 7204--7211 \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 [2833] Overfull \hbox (0.78088pt too wide) in paragraph at lines 7279--7279 [] \T1/pcr/m/n/10 varname = NULL, limits, at = NULL, labels = NULL,[] [2834] Underfull \hbox (badness 10000) in paragraph at lines 7309--7313 []\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 7309--7313 []\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 [2835] Underfull \hbox (badness 10000) in paragraph at lines 7414--7417 \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 7439--7439 [] \T1/pcr/m/n/9 function(i,j) hcl.colors(11)[i+j-1]) ## rainbow( 11, start=.12, end=.5)[i+j-1])[] [2836] [2837] Underfull \hbox (badness 2012) in paragraph at lines 7580--7583 []\T1/ptm/m/n/10 Further ar-gu-ments, of-ten graph-i-cal pa-ram-e-ters, even-tu -ally passed on to [2838] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7626--7626 [] \T1/pcr/m/n/9 panel.qqmath(..., f.value = ppoints(100), ta ils.n = 50))[] [2839] [2840] [2841] Underfull \hbox (badness 1939) in paragraph at lines 7815--7823 []\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 7815--7823 \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 Underfull \hbox (badness 2772) in paragraph at lines 7838--7841 []\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 [2842] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7909--7909 [] \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 7919--7919 [] \T1/pcr/m/n/9 scales = list(alternating = c(0, 2), tck = c(0, 0.7), d raw = FALSE),[] [2843] Overfull \hbox (12.78088pt too wide) in paragraph at lines 7980--7980 [] \T1/pcr/m/n/10 font, fontfamily, fontface, cex, ..., identifier, nam e.type)[] Overfull \hbox (72.78088pt too wide) in paragraph at lines 7985--7985 [] \T1/pcr/m/n/10 adj = c(0.5, 0.5), pos = NULL, offset = 0.5, ..., ident ifier, name.type)[] [2844] [2845] [2846] Overfull \hbox (66.78088pt too wide) in paragraph at lines 8170--8170 []\T1/pcr/m/n/10 panel.grid(h=3, v=3, col, col.line, lty, lwd, x, y, ..., iden tifier = "grid")[] [2847] Underfull \hbox (badness 1436) in paragraph at lines 8225--8231 []\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 [2848] Overfull \hbox (42.18039pt too wide) in paragraph at lines 8355--8355 [] \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 8369--8369 [] \T1/pcr/m/n/9 args = list(mean = mean(x), sd = sd(x)), ...)[] [2849] [2850] [2851] [2852] [2853] [2854] [2855] Underfull \hbox (badness 10000) in paragraph at lines 8794--8797 []\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 8794--8797 []\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 [2856] [2857] Overfull \hbox (24.78088pt too wide) in paragraph at lines 8969--8969 []\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 8970--8970 []\T1/pcr/m/n/10 prepanel.default.histogram(x, breaks, equal.widths, type, nin t, ...)[] [2858] Overfull \hbox (30.78088pt too wide) in paragraph at lines 8982--8982 []\T1/pcr/m/n/10 prepanel.default.densityplot(x, darg, groups, weights, subscr ipts, ...)[] Underfull \hbox (badness 3118) in paragraph at lines 9001--9004 []\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 [2859] Underfull \hbox (badness 1515) in paragraph at lines 9077--9081 []\T1/ptm/m/n/10 numeric vec-tor of length two, rep-re-sent-ing prob-a-bil-i-ti es. If used with [2860] [2861] Underfull \hbox (badness 6316) in paragraph at lines 9183--9188 []\T1/ptm/m/n/10 which packet (counted ac-cord-ing to the packet or-der, de-scr ibed in [2862] Overfull \hbox (47.58038pt too wide) in paragraph at lines 9293--9293 [] \T1/pcr/m/n/9 ans$bottom$labels$labels <- parse(text = ans$b ottom$labels$labels)[] [2863] [2864] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9432--9432 []\T1/pcr/m/n/9 xyplot(sunspot.year ~ time(sunspot.year) | equal.count(time(su nspot.year)),[] [2865] Underfull \hbox (badness 1028) in paragraph at lines 9491--9495 \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, [2866] [2867] [2868] [2869] [2870] [2871] [2872] Underfull \hbox (badness 7238) in paragraph at lines 9955--9959 []\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 9955--9959 []\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 , [2873] [2874] [2875]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.melanoma}) has been already used, duplicate ignored \relax l.10186 \aliasA{melanoma}{H\_melanoma}{melanoma} [2876] [2877] [2878] Underfull \hbox (badness 10000) in paragraph at lines 10348--10353 \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 10421--10421 [] \T1/pcr/m/n/9 par.settings = simpleTheme(pch = 16), auto.key = list( columns = 2),[] [2879] [2880]) (./mgcv-pkg.tex Chapter 24. [2881] [2882] 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,[] [2883] Overfull \hbox (72.78088pt 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 184--188 \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 209--214 \T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known scale. [2884] [2885] [2886] [2887] Underfull \hbox (badness 10000) in paragraph at lines 379--386 [][][]\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 379--386 [][][]\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 379--386 [][][]\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 , [2888] Overfull \hbox (4.38043pt too wide) in paragraph at lines 422--422 []\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)+[] [2889] [2890] [2891] Underfull \hbox (badness 2922) in paragraph at lines 634--635 []\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 [2892] [2893] Underfull \hbox (badness 1406) in paragraph at lines 704--705 []\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 [2894] [2895] Underfull \hbox (badness 1158) in paragraph at lines 814--816 []\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 [2896] Underfull \hbox (badness 1259) in paragraph at lines 877--878 []\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). [2897] Underfull \vbox (badness 10000) has occurred while \output is active [2898] [2899] [2900] [2901] [2902] [2903] [2904] [2905] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1337--1337 []\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 1338--1338 []\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 1355--1355 [] \T1/pcr/m/n/9 plot(b$y[oy],rs[oy,ii[1]],ylim=c(-3,3),type="l",ylab="scor e residuals",[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1367--1367 []\T1/pcr/m/n/9 bs <- gam(cbind(time,strata)~s(age,by=sex)+sex+s(nodes)+perfor +rx+obstruct[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1376--1376 []\T1/pcr/m/n/9 if (i==1) plot(bs$family$data$tr[ind],exp(-bs$family$data$h[in d]),type="l",[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1378--1378 [] \T1/pcr/m/n/9 lines(bs$family$data$tr[ind],exp(-bs$family$data$h[ind]) ,lwd=2,col=i)[] Underfull \vbox (badness 10000) has occurred while \output is active [2906] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1409--1409 []\T1/pcr/m/n/9 b <- gam(t~s(x0)+s(x1)+s(x2,k=15)+s(x3),family=cox.ph,weights= d,data=surv)[] Underfull \vbox (badness 10000) has occurred while \output is active [2907] [2908] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1492--1492 [] \T1/pcr/m/n/9 if (inter) prg <- txtProgressBar(min = 0, max = length(sid), initial = 0,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1503--1503 [] \T1/pcr/m/n/9 if (um[[et]][1]==max(tr)&&um[[status]][1]==1) um[[event]][ nrow(um)] <- 1[] Underfull \vbox (badness 10000) has occurred while \output is active [2909] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1542--1542 []\T1/pcr/m/n/9 pd <- data.frame(lapply(X=di,FUN=app,t=di$day,to=te)) ## inter polate to te[] [2910] [2911] [2912] [2913] [2914] [2915] [2916] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1939--1939 []\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)[] [2917] [2918] [2919] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2164--2164 []\T1/pcr/m/n/10 fixDependence(X1,X2,tol=.Machine$double.eps^.5,rank.def=0,str ict=FALSE) [2920] [2921] [2922] [2923] [2924] [2925] [2926] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2569--2569 []\T1/pcr/m/n/10 gam(formula,family=gaussian(),data=list(),weights=NULL,subset =NULL,[] Underfull \hbox (badness 1728) in paragraph at lines 2581--2584 []\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 2594--2598 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [2927] Underfull \hbox (badness 1043) in paragraph at lines 2620--2626 \T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known scale. [2928] [2929] [2930] Underfull \hbox (badness 1043) in paragraph at lines 2789--2795 \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 [2931] [2932] Underfull \hbox (badness 10000) in paragraph at lines 2925--2931 [][][]\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 2925--2931 [][][]\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 2925--2931 [][][]\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 , [2933] Underfull \vbox (badness 10000) has occurred while \output is active [2934] Underfull \vbox (badness 10000) has occurred while \output is active [2935] [2936] [2937] Overfull \hbox (78.78088pt too wide) in paragraph at lines 3242--3242 []\T1/pcr/m/n/10 gam.control(nthreads=1,ncv.threads=1,irls.reg=0.0,epsilon = 1 e-07, maxit = 200, [2938] [2939] [2940] [2941] [2942] [2943] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3583--3583 [] \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 3586--3586 [] \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 3587--3587 [] \T1/pcr/m/n/10 pearson.extra=0,dev.extra=0,n.true=-1,Sl=NULL,nei=NU LL,...)[] [2944] [2945] [2946] [2947] [2948] [2949] [2950] [2951] Underfull \hbox (badness 5189) in paragraph at lines 4065--4069 []\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 [2952] [2953] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4182--4182 []\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 [2954] [2955] [2956] Underfull \hbox (badness 1184) in paragraph at lines 4352--4356 []\T1/ptm/m/n/10 list of the square root penal-ties: last en-try is root of fix ed penalty, if [2957] [2958] [2959] [2960] [2961] [2962] [2963] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4798--4798 [] \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)+[] [2964] [2965] [2966] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4948--4948 []\T1/pcr/m/n/10 gamlss.gH(X, jj, l1, l2, i2, l3 = 0, i3 = 0, l4 = 0, i4 = 0, d1b = 0, [2967] [2968] Underfull \hbox (badness 1142) in paragraph at lines 5075--5079 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [2969] Underfull \hbox (badness 10000) in paragraph at lines 5147--5156 []\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 [2970] [2971] Underfull \hbox (badness 5970) in paragraph at lines 5264--5270 [][][]\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 5264--5270 [][][]\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 . [2972] Underfull \vbox (badness 10000) has occurred while \output is active [2973] [2974] [2975] [2976] Underfull \hbox (badness 1577) in paragraph at lines 5614--5617 []\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 Underfull \hbox (badness 2181) in paragraph at lines 5621--5622 []\T1/ptm/m/n/10 one sided for-mula con-tain-ing vari-ables needed for pre-dic- tion, used by [2977] [2978] [2979] [2980] [2981] [2982] [2983] Underfull \hbox (badness 6708) in paragraph at lines 6009--6010 []\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 [2984] [2985] Overfull \hbox (58.38037pt too wide) in paragraph at lines 6058--6058 [] \T1/pcr/m/n/9 ## example using a scale location model for the motorcycle d ata. A simple plotting[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6083--6083 [] \T1/pcr/m/n/9 } else lines(xg,predict(din,xg)$y,col=lcol[j],lwd=lwd[j] ,lty=lty[j])[] [2986] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6112--6112 [] \T1/pcr/m/n/9 fv <- predict(b,se=TRUE) ## usual Gaussian approximation, fo r comparison[] [2987] [2988] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6234--6234 [] \T1/pcr/m/n/9 (1+exp(-10*(x[201:300]-.5)))-0.9933071) + z*(1-z)*5 + r norm(100)*.4[] [2989] [2990] [2991] [2992] [2993] Overfull \hbox (24.78088pt too wide) in paragraph at lines 6571--6571 []\T1/pcr/m/n/10 jagam(formula,family=gaussian,data=list(),file,weights=NULL,n a.action, [2994] Overfull \hbox (36.78088pt too wide) in paragraph at lines 6573--6573 []\T1/pcr/m/n/10 control=gam.control(),centred=TRUE,sp.prior = "gamma",diagona lize=FALSE)[] Underfull \hbox (badness 1142) in paragraph at lines 6594--6598 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [2995] [2996] [2997] Underfull \vbox (badness 10000) has occurred while \output is active [2998] [2999] [3000] Overfull \hbox (72.78088pt too wide) in paragraph at lines 6913--6913 []\T1/pcr/m/n/10 ldTweedie(y,mu=y,p=1.5,phi=1,rho=NA,theta=NA,a=1.001,b=1.999, all.derivs=FALSE) [3001] [3002] [3003] [3004] Underfull \vbox (badness 10000) has occurred while \output is active [3005] Underfull \vbox (badness 10000) has occurred while \output is active [3006] [3007] [3008] Overfull \hbox (52.98038pt too wide) in paragraph at lines 7345--7345 []\T1/pcr/m/n/9 "The world is ruled by idiots because only an idiot would want to rule the world.",[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 7372--7372 [] \T1/pcr/m/n/10 .Machine$double.eps^0.5),extra.rss=0,n.score=length(y), nthreads=1)[] [3009] [3010] [3011] [3012] [3013] [3014] [3015] [3016] [3017] Underfull \hbox (badness 1242) in paragraph at lines 7915--7916 []\T1/ptm/m/n/10 Development of mgcv ver-sion 1.8 was part funded by EP-SRC gra nts EP/K005251/1 and [3018] [3019] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8002--8002 []\T1/pcr/m/n/9 ## Alternative, better scaling example, using the discrete opt ion with bam...[] [3020] [3021] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8065--8065 []\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 8084--8084 [] \T1/pcr/m/n/9 dat1[[dname[i]]][dat1[[by.name]]] <- mean(dat1[[dname[i]]] ,na.rm=TRUE)[] Underfull \vbox (badness 10000) has occurred while \output is active [3022] [3023] [3024] [3025] [3026] [3027] [3028] [3029] [3030] [3031] [3032] [3033] [3034] [3035] [3036] [3037] [3038] [3039] Underfull \vbox (badness 10000) has occurred while \output is active [3040] [3041] Underfull \hbox (badness 10000) in paragraph at lines 9309--9312 []\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 9309--9312 []\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 9309--9312 []\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 . [3042] Underfull \hbox (badness 10000) in paragraph at lines 9365--9368 []\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 9365--9368 []\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 [3043] [3044] [3045] Overfull \hbox (18.78088pt too wide) in paragraph at lines 9585--9585 []\T1/pcr/m/n/10 plot(x,residuals=FALSE,rug=NULL,se=TRUE,pages=0,select=NULL,s cale=-1,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9586--9586 [] \T1/pcr/m/n/10 n=100,n2=40,n3=3,pers=FALSE,theta=30,phi=30,jit=FALS E,xlab=NULL,[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 9589--9589 [] \T1/pcr/m/n/10 trans=I,seWithMean=FALSE,unconditional=FALSE,by.resi ds=FALSE,[] [3046] [3047] [3048] Underfull \hbox (badness 1629) in paragraph at lines 9747--9752 []\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 [3049] [3050] [3051] [3052] Overfull \hbox (84.78088pt too wide) in paragraph at lines 9959--9959 [] \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 9996--10000 []\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- [3053] [3054] [3055] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10129--10129 [] \T1/pcr/m/n/10 na.action=na.pass,unconditional=FALSE,iterms.type=NUL L,...)[] [3056] [3057] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10290--10290 []\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 10291--10291 []\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))[] [3058] Underfull \vbox (badness 10000) has occurred while \output is active [3059] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10410--10410 [] \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[] Underfull \vbox (badness 10000) has occurred while \output is active [3060] Underfull \hbox (badness 1205) in paragraph at lines 10448--10449 []\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 10448--10449 \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 10454--10459 []\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 [3061] Underfull \hbox (badness 1205) in paragraph at lines 10538--10539 []\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 10538--10539 \T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are as for [3062] Underfull \hbox (badness 10000) in paragraph at lines 10607--10610 []\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 10607--10610 [][][]\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, [3063] [3064] [3065] Underfull \hbox (badness 1253) in paragraph at lines 10737--10739 []\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, [3066] [3067] [3068] [3069] [3070] Underfull \hbox (badness 1946) in paragraph at lines 10990--10997 []\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 10990--10997 \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 10990--10997 \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 Underfull \hbox (badness 2846) in paragraph at lines 10998--11001 []\T1/ptm/m/n/10 Alternatively, but less straight-for-wardly, the []\T1/pcr/m/n /10 paraPen []\T1/ptm/m/n/10 ar-gu-ment to [][][]\T1/pcr/m/n/10 gam[][][] []\T1 /ptm/m/n/10 can be used: Underfull \hbox (badness 5862) in paragraph at lines 10998--11001 \T1/ptm/m/n/10 see [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/ptm/m/n/10 . If s mooth-ing pa-ram-e-ter es-ti-ma-tion is by ML or REML (e.g. [3071] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11064--11064 []\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 11074--11074 []\T1/pcr/m/n/9 ## The effect of the new factor levels (or any interaction inv olving them)[] [3072] Underfull \hbox (badness 10000) in paragraph at lines 11105--11108 []\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 , [3073] [3074] [3075] [3076] [3077] Overfull \hbox (36.78088pt too wide) in paragraph at lines 11407--11407 []\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) [3078] [3079] [3080] [3081] [3082] [3083] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11780--11780 [] \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 11794--11794 []\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 [3084] [3085] Underfull \hbox (badness 3861) in paragraph at lines 11896--11899 []\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 11905--11905 []\T1/pcr/m/n/10 Sl.initial.repara(Sl, X, inverse = FALSE, both.sides = TRUE, cov = TRUE,[] [3086] Underfull \hbox (badness 10000) in paragraph at lines 11922--11926 []\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 11962--11966 []\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- [3087] [3088] [3089] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12106--12106 [] \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 12117--12122 []\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 [3090] Underfull \hbox (badness 1803) in paragraph at lines 12194--12198 \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 12206--12218 []\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 [3091] Underfull \hbox (badness 2401) in paragraph at lines 12223--12227 []\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 12223--12227 \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 , [3092] [3093] [3094] Underfull \hbox (badness 6876) in paragraph at lines 12418--12424 [][][]\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 [3095] Underfull \hbox (badness 10000) in paragraph at lines 12459--12460 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3096] [3097] Underfull \hbox (badness 10000) in paragraph at lines 12577--12578 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3098] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12631--12631 [] \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))+[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12643--12643 [] \T1/pcr/m/n/9 ## now a model with first order penalty evaluated over (-.5, 1.5) (black)[] [3099] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12655--12655 [] \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 12660--12660 [] \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 12666--12666 [] \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 12667--12667 [] \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:[] [3100] Underfull \hbox (badness 10000) in paragraph at lines 12736--12738 []\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 12736--12738 \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 [3101] [3102] Underfull \hbox (badness 10000) in paragraph at lines 12866--12867 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3103] [3104] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12947--12947 []\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 12948--12948 []\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[] [3105] [3106] Underfull \hbox (badness 10000) in paragraph at lines 13101--13102 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3107] [3108] [3109] [3110] [3111] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13351--13351 []\T1/pcr/m/n/9 b <- gam(crime ~ s(district,bs="mrf",k=20,xt=xt),data=columb,m ethod="REML")[] [3112] Underfull \hbox (badness 10000) in paragraph at lines 13412--13414 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3113] [3114] Underfull \hbox (badness 10000) in paragraph at lines 13571--13574 []\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 13571--13574 \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 13571--13574 []\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" [3115] [3116] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13657--13657 []\T1/pcr/m/n/9 b <- c(rnorm(nb/2)*2,rnorm(nb/2)*.5) ## random effect now with 2 variances[] [3117] Underfull \hbox (badness 10000) in paragraph at lines 13702--13708 []\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 13702--13708 []\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- [3118] [3119] [3120] Overfull \hbox (36.7804pt too wide) in paragraph at lines 13916--13916 []\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 [3121] Underfull \vbox (badness 10000) has occurred while \output is active [3122] Underfull \hbox (badness 10000) in paragraph at lines 14019--14027 [][][]\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 14045--14046 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3123] [3124] [3125] Underfull \hbox (badness 7613) in paragraph at lines 14190--14193 []\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 [3126] Underfull \hbox (badness 1546) in paragraph at lines 14211--14212 []\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- Overfull \hbox (128.58029pt too wide) in paragraph at lines 14257--14257 []\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")[] [3127] [3128] [3129] Underfull \hbox (badness 3396) in paragraph at lines 14403--14406 [][][]\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 14448--14450 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3130] [3131] [3132] [3133] [3134] [3135] Underfull \hbox (badness 10000) in paragraph at lines 14739--14741 []\T1/pcr/m/n/10 bs="fs" []\T1/ptm/m/n/10 A spe-cial smoother class (see Underfull \hbox (badness 10000) in paragraph at lines 14769--14773 [][][]\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[][][] [][]tprs[][][][]\T1/ptm/m/n/10 ,[ ][][]\T1/pcr/m/n/10 Duchon.spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cubic.regression.spline[][][][]\T1/ptm/m/n/10 ,[][][]\T1/pcr/m/n/10 p.spline[][ ][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14769--14773 [][][]\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 14769--14773 [][][]\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 , [3136] [3137] [3138] [3139] [3140] Underfull \hbox (badness 2158) in paragraph at lines 15059--15059 []\T1/ptm/m/it/10 Extract smooth-ing pa-ram-e-ter es-ti-ma-tor co-vari-ance ma- trix from [3141] [3142] Overfull \hbox (48.78088pt too wide) in paragraph at lines 15138--15138 []\T1/pcr/m/n/10 spasm.sp(object,sp,w=rep(1,object$nobs),get.trH=TRUE,block=0, centre=FALSE)[] [3143] [3144] Overfull \hbox (12.78088pt too wide) in paragraph at lines 15272--15272 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars "),...)[] [3145] [3146] Underfull \hbox (badness 4846) in paragraph at lines 15403--15406 []\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 [3147] [3148] [3149] [3150] [3151] [3152] [3153] [3154] [3155] [3156] [3157] [3158] [3159] [3160] [3161] [3162] [3163] [3164] [3165] [3166] Overfull \hbox (120.78088pt too wide) in paragraph at lines 16621--16621 []\T1/pcr/m/n/10 vcov(object, sandwich=FALSE, freq = FALSE, dispersion = NULL, unconditional=FALSE, ...)[] [3167] Underfull \hbox (badness 1715) in paragraph at lines 16643--16644 []\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 [3168] [3169] [3170] Overfull \hbox (54.78088pt too wide) in paragraph at lines 16833--16833 []\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 16835--16835 []\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 16837--16837 []\T1/pcr/m/n/10 diagXVXd(X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,rt= NULL)[] [3171] Underfull \hbox (badness 10000) in paragraph at lines 16857--16858 []\T1/ptm/m/n/10 Negative to ig-nore. Oth-er-wise sum rows Underfull \hbox (badness 1668) in paragraph at lines 16857--16858 []\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 [3172] Underfull \vbox (badness 10000) has occurred while \output is active [3173] [3174] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17045--17045 []\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 17046--17046 []\T1/pcr/m/n/9 ## it is possible for the linear predictor to be almost unboun ded in regions[] [3175] Overfull \hbox (25.98041pt too wide) in paragraph at lines 17058--17058 []\T1/pcr/m/n/9 ## 3. Refit fixing the theta parameters at their estimated val ues, to check we[] [3176] [3177] [3178]) (./nlme-pkg.tex Chapter 25. [3179] Underfull \hbox (badness 1009) in paragraph at lines 84--93 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3180] Underfull \hbox (badness 1009) in paragraph at lines 174--183 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3181] [3182] [3183] [3184] [3185] Overfull \hbox (4.38043pt too wide) in paragraph at lines 454--454 [] \T1/pcr/m/n/9 lme(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres sure^4))*QB,[] [3186] [3187] Overfull \hbox (20.58041pt too wide) in paragraph at lines 595--595 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 251-254 --------------------------- ---------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 611--611 []\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 614--614 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 222-225 --------------------------- ---------------[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 621--621 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 352-365 --------------------------- ---------------[] [3188] [3189] [3190] [3191] [3192] [3193] [3194] [3195] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1085--1085 [] \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxil lary fissure"),[] [3196] Underfull \hbox (badness 5446) in paragraph at lines 1147--1149 []\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 [3197] [3198] [3199] [3200] [3201] [3202] [3203] Underfull \hbox (badness 10000) in paragraph at lines 1626--1629 [][][]\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 , [3204] Underfull \hbox (badness 3780) in paragraph at lines 1643--1645 []\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 [3205] [3206] [3207] [3208] [3209] Underfull \hbox (badness 2042) in paragraph at lines 1992--1998 \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 , [3210] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2054--2054 []\T1/pcr/m/n/9 collapse(Pixel, collapse = 1) # same as collapse(Pixel, colla pse = "Dog")[] [3211] Underfull \hbox (badness 1132) in paragraph at lines 2143--2145 []\T1/ptm/m/n/10 fitted model ob-jects, from which pre-dic-tions can be ex-trac ted us-ing the [3212] [3213] Underfull \hbox (badness 4168) in paragraph at lines 2254--2260 [][][]\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 , [3214] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2279--2279 [] \T1/pcr/m/n/9 gls(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres sure^4))*QB,[] [3215] [3216] [3217] [3218] [3219] [3220] [3221] [3222] Underfull \hbox (badness 10000) in paragraph at lines 2845--2849 [][][]\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 , [3223] [3224] [3225] [3226] [3227] [3228pdfTeX warning (ext4): destination with the same identifier (name{Rfn.corMatrix.corCompSymm}) has been already used, d uplicate ignored ...shipout:D \box_use:N \l_shipout_box l.3188 ...trix(cs1, covariate = 1:4, corr = FALSE) ] [3229] [3230] [3231] [3232] [3233] [3234] Underfull \hbox (badness 6493) in paragraph at lines 3580--3588 [][][]\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 , [3235] [3236] [3237] [3238] [3239] [3240] [3241] [3242] [3243] [3244] [3245] [3246] [3247] [3248] [3249] [3250] [3251] [3252] [3253] [3254] [3255] [3256] [3257] [3258] Underfull \hbox (badness 10000) in paragraph at lines 5160--5164 [][][]\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 , [3259] [3260] [3261] [3262] [3263] [3264] [3265] Underfull \hbox (badness 10000) in paragraph at lines 5592--5595 [][][]\T1/pcr/m/n/10 getGroupsFormula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n /10 getGroups.data.frame[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 getGroups .gls[][][][]\T1/ptm/m/n/10 , [3266] [3267] [3268] [3269] [3270] [3271] [3272] [3273] [3274] Underfull \hbox (badness 2799) in paragraph at lines 6098--6104 \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 [3275] Underfull \hbox (badness 7133) in paragraph at lines 6159--6163 []\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 , [3276] Underfull \hbox (badness 2057) in paragraph at lines 6248--6259 [][][]\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 , [3277] Underfull \hbox (badness 10000) in paragraph at lines 6312--6314 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3278] [3279] [3280] [3281] Underfull \hbox (badness 7133) in paragraph at lines 6560--6564 []\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 , [3282] Underfull \hbox (badness 10000) in paragraph at lines 6659--6665 [][][]\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 6686--6686 []\T1/pcr/m/n/10 gnlsControl(maxIter = 50, nlsMaxIter = 7, msMaxIter = 50, min Scale = 0.001, [3283] Underfull \hbox (badness 10000) in paragraph at lines 6724--6726 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3284] [3285] [3286] [3287] Underfull \hbox (badness 10000) in paragraph at lines 6995--7002 [][][]\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 , [3288] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7013--7013 [] \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxilla ry fissure" ),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7018--7018 []\T1/pcr/m/n/9 fm1 <- lme( Orth.new ) # fixed and groups formulae extracted from object[] Underfull \hbox (badness 2875) in paragraph at lines 7040--7042 []\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 [3289] [3290] [3291] Underfull \hbox (badness 10000) in paragraph at lines 7255--7260 [][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr /m/n/10 Initialize.lmeStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initi alize.glsStruct[][][][]\T1/ptm/m/n/10 , [3292] [3293] [3294] Underfull \hbox (badness 1997) in paragraph at lines 7406--7414 []\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 7406--7414 \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 7429--7432 [][][]\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 , [3295] [3296] [3297] Underfull \hbox (badness 3354) in paragraph at lines 7645--7647 []\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 [3298] [3299] [3300] [3301] [3302] [3303] [3304] [3305] Underfull \hbox (badness 10000) in paragraph at lines 8173--8190 [][][]\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 8173--8190 [][][]\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 , [3306] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8216--8216 [] \T1/pcr/m/n/10 subset, method, na.action, control, contrasts, keep.data = TRUE)[] Underfull \hbox (badness 1642) in paragraph at lines 8225--8247 []\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a one-sided for-mula o f the form [3307] [3308] [3309] [3310] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8490--8490 []\T1/pcr/m/n/10 lmeControl(maxIter = 50, msMaxIter = 50, tolerance = 1e-6, ni terEM = 25, [3311] Underfull \hbox (badness 10000) in paragraph at lines 8538--8540 []\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 8582--8582 []\T1/pcr/m/n/9 # request that information on the evolution of the ms iteratio ns be printed[] [3312] [3313] [3314] [3315] [3316] [3317] [3318] [3319] [3320] [3321] [3322] [3323] Underfull \hbox (badness 10000) in paragraph at lines 9345--9352 [][][]\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 9356--9356 []\T1/pcr/m/n/9 fm1 <- lme(distance ~ Sex * age, Orthodont, random = ~ age, me thod = "ML") [3324] [3325] [3326] [3327] [3328]pdfTeX warning (ext4): destination with the s ame identifier (name{Rfn.Matrix}) has been already used, duplicate ignored \relax l.9707 ...rA{Matrix}{Assign Matrix Values}{Matrix} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.Matrix.1}) has been already used, dupl icate ignored \relax l.9707 ...rA{Matrix}{Assign Matrix Values}{Matrix} [3329] Underfull \hbox (badness 10000) in paragraph at lines 9727--9730 []\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 9771--9774 []\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 9771--9774 \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 [3330] [3331] [3332] [3333] [3334] [3335] [3336] [3337] [3338] [3339] [3340] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10451--10451 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights, [3341] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10455--10455 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights,[] Underfull \hbox (badness 1596) in paragraph at lines 10484--10510 []\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a two-sided for-mula o f the form [3342] [3343] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10638--10638 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights,[] [3344] [3345] [3346] Overfull \hbox (36.78088pt too wide) in paragraph at lines 10789--10789 [] \T1/pcr/m/n/10 opt = c("nlminb", "nlm"), natural = TRUE, sigma = NULL, ...)[] Underfull \hbox (badness 2213) in paragraph at lines 10800--10805 []\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 10822--10826 []\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= [3347] Underfull \hbox (badness 10000) in paragraph at lines 10841--10843 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3348] [3349] [3350] [3351] Overfull \hbox (96.18033pt too wide) in paragraph at lines 11137--11137 []\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 11138--11138 []\T1/pcr/m/n/9 mat.class <- class(matrix(1)) # ("matrix", "array") for R >= 4 .0.0; ("matrix" in older R)[] [3352] [3353] [3354] [3355] [3356] [3357] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11528--11528 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo nt)), .. lme(*)) [3358] [3359] [3360] [3361] [3362] [3363] Underfull \hbox (badness 6268) in paragraph at lines 11915--11925 [][][]\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 , [3364] [3365] [3366] [3367] Underfull \hbox (badness 10000) in paragraph at lines 12176--12182 [][][]\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 , [3368] [3369] [3370] [3371] [3372] Underfull \hbox (badness 6876) in paragraph at lines 12498--12500 []\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 [3373] [3374] Underfull \hbox (badness 2452) in paragraph at lines 12654--12661 [][][]\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 , [3375] Underfull \hbox (badness 10000) in paragraph at lines 12720--12726 [][][]\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 , [3376] [3377] [3378] [3379] [3380] [3381] [3382] [3383] [3384] Overfull \hbox (25.98041pt too wide) in paragraph at lines 13309--13309 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo nt)), .. lme(*)) [3385] [3386] [3387] [3388] [3389] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13674--13674 []\T1/pcr/m/n/9 plot(fm1, resid(., type = "pool") ~ fitted(.) | Sex, abline = 0, id = 0.05)[] [3390] Underfull \hbox (badness 10000) in paragraph at lines 13701--13704 []\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 [3391] Underfull \hbox (badness 1838) in paragraph at lines 13744--13751 []\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 13744--13751 []\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 13801--13801 []\T1/pcr/m/n/10 plot(x, outer, inner, innerGroups, xlab, ylab, strip, aspect, panel,[] [3392] Underfull \hbox (badness 10000) in paragraph at lines 13808--13811 []\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 13808--13811 []\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 [3393] Underfull \hbox (badness 10000) in paragraph at lines 13916--13919 []\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 [3394] [3395] Underfull \hbox (badness 10000) in paragraph at lines 14010--14012 [][][]\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 , [3396] [3397] [3398] [3399] [3400] [3401] [3402] [3403] Overfull \hbox (20.58041pt too wide) in paragraph at lines 14534--14534 []\T1/pcr/m/n/9 newOrth <- data.frame(Sex = c("Male","Male","Female","Female", "Male","Male"),[] [3404] [3405] [3406] [3407] [3408] [3409] [3410] [3411] [3412]pdfTeX warning (e xt4): destination with the same identifier (name{Rfn.random.effects}) has been already used, duplicate ignored \relax l.15187 ...Extract Random Effects}{random.effects} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.random.effects.1}) has been already us ed, duplicate ignored \relax l.15187 ...Extract Random Effects}{random.effects} [3413] [3414] [3415] [3416] [3417] [3418] [3419] [3420] [3421] [3422] Underfull \hbox (badness 2126) in paragraph at lines 15826--15830 []\T1/ptm/m/n/10 Charles F. Minto, Thomas W. Schnider and Steven L. Shafer (199 7). Phar-ma-coki-net- [3423] Overfull \hbox (25.98041pt too wide) in paragraph at lines 15834--15834 []\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 Overfull \hbox (31.3804pt too wide) in paragraph at lines 15853--15853 [] \T1/pcr/m/n/9 stopifnot(all.equal(BSA, Wt^{0.425} * Ht^{0.725} * 0.00718 4, tol = 1.5e-5),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 15854--15854 [] \T1/pcr/m/n/9 all.equal(LBM, LBMfn(Wt, Ht, Sex), tol = 7e-7)[] [3424] Underfull \hbox (badness 1009) in paragraph at lines 15884--15893 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3425] [3426] Overfull \hbox (66.78088pt too wide) in paragraph at lines 16031--16031 [] \T1/pcr/m/n/10 type = c("response", "pearson", "normalized"), asLi st = FALSE, ...)[] [3427] [3428] [3429] [3430] [3431] Underfull \hbox (badness 10000) in paragraph at lines 16366--16372 [][][]\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 , [3432] Overfull \hbox (18.78088pt too wide) in paragraph at lines 16398--16398 [] \T1/pcr/m/n/10 method = c("REML", "ML"), niterEM = c(40, 200), useG en, ...)[] [3433] [3434] [3435] [3436] [3437] [3438] [3439] Underfull \hbox (badness 1728) in paragraph at lines 16885--16888 []\T1/ptm/m/n/10 an op-tional log-i-cal value used to con-trol the amount of ou t-put in the [3440] [3441] [3442] [3443] [3444] Underfull \hbox (badness 1803) in paragraph at lines 17219--17228 \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 17219--17228 \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 17219--17228 \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) [3445] Underfull \hbox (badness 10000) in paragraph at lines 17290--17291 []\T1/pcr/m/n/10 "Constant plus power of variance Underfull \hbox (badness 10000) in paragraph at lines 17291--17292 []\T1/pcr/m/n/10 "Constant plus proportion of variance [3446] [3447] [3448] [3449] Underfull \hbox (badness 10000) in paragraph at lines 17541--17549 [][][]\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 , [3450] [3451] [3452] [3453] Overfull \hbox (4.38043pt too wide) in paragraph at lines 17813--17813 []\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 17815--17815 []\T1/pcr/m/n/9 # overparameterisation in the case of a constant term in the v ariance function[] [3454] [3455] [3456] [3457] [3458] [3459] Underfull \hbox (badness 10000) in paragraph at lines 18251--18261 [][][]\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 18251--18261 [][][]\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 , [3460] Underfull \hbox (badness 3579) in paragraph at lines 18289--18294 \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 [3461] Underfull \hbox (badness 3579) in paragraph at lines 18353--18358 \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 [3462] Underfull \hbox (badness 3579) in paragraph at lines 18416--18421 \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 [3463] Underfull \hbox (badness 1577) in paragraph at lines 18477--18479 []\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 18479--18484 \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 [3464] Underfull \hbox (badness 3579) in paragraph at lines 18542--18547 \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 18575--18584 [][][]\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 18575--18584 [][][]\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 , [3465] Underfull \hbox (badness 3579) in paragraph at lines 18614--18619 \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 [3466] [3467] Underfull \hbox (badness 1009) in paragraph at lines 18760--18769 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3468] [3469] Underfull \hbox (badness 1009) in paragraph at lines 18892--18901 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3470] [3471] [3472] [3473] [3474] [3475] [3476] [3477] [3478]) (./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): destin ation with the same identifier (name{Rfn.multinom.1}) has been already used, du plicate ignored \relax l.47 ...t Multinomial Log-linear Models}{multinom} [3479] 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,[] [3480] [3481] [3482] Overfull \hbox (15.18042pt too wide) in paragraph at lines 371--371 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 2, rang = 0.1,[] [3483] Overfull \hbox (4.38043pt too wide) in paragraph at lines 428--428 []\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 431--431 []\T1/pcr/m/n/9 ir1 <- nnet(ir[samp,], targets[samp,], size=2, rang=0.1, decay =5e-4, maxit=200)[] [3484] [3485] Overfull \hbox (15.18042pt too wide) in paragraph at lines 511--511 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 2, rang = 0.1,[] [3486]) (./rpart-pkg.tex Chapter 27. [3487] [3488] [3489] [3490] 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, ...)[] [3491] [3492] [3493] [3494] 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 [3495] [3496] 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 [3497] [3498] [3499] 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"),[] [3500] [3501] [3502] [3503] 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 [3504] 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,[] [3505] [3506] [3507] [3508] [3509] [3510] [3511] 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 ', [3512] 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,[] [3513] [3514] [3515]) (./spatial-pkg.tex [3516] Chapter 28. [3517] [3518] [3519] [3520] [3521] [3522] Underfull \hbox (badness 10000) in paragraph at lines 423--427 [3523] [3524] [3525] [3526] [3527] [3528] [3529] [3530] [3531] [3532] [3533] [3534] [3535]) (./survival-pkg.tex [3536] Chapter 29. [3537] [3538] 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.[] [3539] [3540] 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 [3541] [3542]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): destin ation with the same identifier (name{Rfn.aml.1}) has been already used, duplica te ignored \relax l.384 ... Myelogenous Leukemia survival data}{aml} [3543] Overfull \hbox (9.78043pt too wide) in paragraph at lines 485--485 []\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 487--487 []\T1/pcr/m/n/9 fit2 <- coxph(Surv(futime, fustat) ~ resid.ds +rx + ecog.ps, d ata=ovarian)[] [3544] 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)[] [3545] [3546] [3547] [3548] Overfull \hbox (20.58041pt too wide) in paragraph at lines 773--773 []\T1/pcr/m/n/9 py <- pseudo(survfit(Surv(time, status) ~1, lung), time=730) # 2 year survival Overfull \hbox (48.78088pt too wide) in paragraph at lines 796--796 [] \T1/pcr/m/n/10 method =c("Prentice","SelfPrentice","LinYing","I.Borgan", "II.Borgan"),[] [3549] [3550] Overfull \hbox (9.78043pt too wide) in paragraph at lines 939--939 [] \T1/pcr/m/n/9 subcoh = ~subcohort, id=~seqno, stratum=~instit, cohort.siz e=stratsizes,[] [3551] [3552] [3553] Underfull \hbox (badness 1097) in paragraph at lines 1110--1112 []\T1/ptm/m/n/10 F.J. Anscombe (1949). Trans-for-ma-tions of Pois-son, bi-no-mi al and negative-binomial data. Overfull \hbox (4.38043pt too wide) in paragraph at lines 1130--1130 []\T1/pcr/m/n/9 ppois(4, 10.24153) #chance of seeing 4 or fewer events wit h large rate[] [3554] [3555] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1245--1245 []\T1/pcr/m/n/9 ## Not run: clogit(case ~ spontaneous + induced + strata(strat um), data=infert) [3556] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1306--1306 []\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.1312 ...erapy for Stage B/C colon cancer}{colon} [3557] Overfull \hbox (72.78088pt too wide) in paragraph at lines 1412--1412 [] \T1/pcr/m/n/10 influence=0, ranks = FALSE, reverse=FALSE, timefix=TRUE, ke epstrata=10, ...)[] [3558] [3559] [3560] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1638--1638 []\T1/pcr/m/n/9 options(na.action = na.exclude) # predict all 1384 obs, incl uding missing[] [3561] [3562] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1732--1732 []\T1/pcr/m/n/10 cox.zph(fit, transform="km", terms=TRUE, singledf=FALSE, glob al=TRUE) [3563] [3564] [3565] [3566] Underfull \hbox (badness 10000) in paragraph at lines 2048--2063 []\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 2048--2063 \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 2048--2063 \T1/ptm/m/n/10 cial terms, e.g., []\T1/pcr/m/n/10 survival::coxph(survival:Surv (time, status) ~ age + [3567] Underfull \hbox (badness 3861) in paragraph at lines 2143--2147 [][][]\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 , [3568] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2198--2198 []\T1/pcr/m/n/10 iter.max = 20, toler.inf = sqrt(eps), outer.max = 10, timefix =TRUE)[] [3569] [3570] [3571] [3572] [3573] [3574] [3575] [3576] [3577] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2825--2825 [] \T1/pcr/m/n/9 [1] "extreme" "logistic" "gaussian" "weibull" " exponential"[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2866--2866 []\T1/pcr/m/n/10 finegray(formula, data, weights, subset, na.action= na.pass, etype, [3578] [3579] [3580] [3581] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3110--3110 []\T1/pcr/m/n/10 frailty.t(x, sparse = (nclass > 5), theta, df, eps = 1e-05, t df = 5,[] [3582] [3583] [3584] [3585] [3586] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3451--3451 []\T1/pcr/m/n/9 kfit <- coxph(Surv(time, status)~ age + sex + disease + frailt y(id), kidney) [3587] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3486--3486 [] \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 3500--3502 []\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 Overfull \hbox (12.78088pt too wide) in paragraph at lines 3511--3511 [] \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "ar csin"),[] [3588] [3589] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3645--3645 [] \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 )))[] [3590] [3591] Overfull \hbox (467.89665pt too wide) in alignment at lines 3786--3786 [] [] [3592] [3593] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3908--3908 []\T1/pcr/m/n/9 # surprise) but their rates of conversion to PCM are essential ly the same.[] [3594] [3595] [3596] [3597] [3598] [3599] [3600] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4344--4344 [] \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 )))[] [3601] [3602] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4494--4494 []\T1/pcr/m/n/9 tdata <- data.frame(x= lung$age, y = 10*log(lung$age-35) + rno rm(228, 0, 2))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4499--4499 []\T1/pcr/m/n/9 knots <- unlist(attributes(fit1$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 4503--4503 []\T1/pcr/m/n/9 unname(coef(fit1)[-1] - coef(fit1)[1]) # differences: yhat[2: 4] - yhat[1][] [3603] Underfull \vbox (badness 1527) has occurred while \output is active [3604] [3605] [3606] [3607] [3608] [3609] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4920--4920 [] \T1/pcr/m/n/10 pch=3, col=1, lty=1, lwd=1, cex=1, log=FALSE, xscale=1, ysca le=1,[] [3610] [3611] [3612] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5150--5150 []\T1/pcr/m/n/10 se.fit=FALSE, na.action=na.pass, terms=names(object$assign), collapse,[] [3613] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5276--5276 []\T1/pcr/m/n/9 mresid <- (lung$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[] [3614] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5284--5284 [] \T1/pcr/m/n/9 predict(fit, reference="sample") + sum(coef(fit) * fit$means , na.rm=TRUE)[] [3615] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5370--5370 []\T1/pcr/m/n/9 pct <- 1:98/100 # The 100th percentile of predicted survival is at +infinity[] [3616] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5448--5448 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), expand=FALSE , ...)[] [3617] Underfull \hbox (badness 1852) in paragraph at lines 5520--5522 []\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 [3618] [3619] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5646--5646 []\T1/pcr/m/n/10 pseudo(fit, times, type, addNA=TRUE, data.frame=FALSE, minus1 =FALSE, ...) [3620] [3621] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5757--5757 []\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 5769--5769 []\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 5771--5771 []\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 5795--5795 []\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 5796--5796 [] \T1/pcr/m/n/10 Boundary.knots=range(x), intercept=FALSE, penalty=TRUE, co mbine, ...)[] [3622] [3623] [3624] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5959--5959 [] \T1/pcr/m/n/10 py <- pyears(futime ~ rx, rmap=list(age=age, sex=sex, year= entry.dt),[] [3625] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6061--6061 []\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 6082--6082 []\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 6084--6084 []\T1/pcr/m/n/9 fit2 <- pyears(Surv(stop/365.25, event) ~ tcut(age + 48, c(0,5 0,60,70,100)) +[] [3626] [3627] [3628] [3629] Underfull \vbox (badness 3168) has occurred while \output is active [3630] [3631] [3632] Overfull \hbox (42.78088pt too wide) in paragraph at lines 6550--6550 [] \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfbe tas")), ...)[] [3633] [3634] [3635] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6731--6731 []\T1/pcr/m/n/10 residuals(object, type=c("response", "deviance","dfbeta","dfb etas",[] Underfull \hbox (badness 1043) in paragraph at lines 6743--6746 []\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 [3636] [3637] [3638] [3639] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7050--7050 []\T1/pcr/m/n/9 lfit1 <- survreg(Surv(time, status) ~ age + ridge(ph.ecog, the ta=5), lung)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7051--7051 []\T1/pcr/m/n/9 lfit2 <- survreg(Surv(time, status) ~ sex + ridge(age, ph.ecog , theta=1), lung)[] [3640] [3641] [3642] Overfull \hbox (72.78088pt too wide) in paragraph at lines 7223--7223 []\T1/pcr/m/n/10 rttright(formula, data, weights, subset, na.action, times, id , timefix = TRUE) [3643] Overfull \hbox (42.18039pt too wide) in paragraph at lines 7304--7304 []\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 7308--7308 []\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.7312 ...ata from a soldering experiment}{solder} [3644] Overfull \vbox (33.26576pt too high) has occurred while \output is active [3645] Overfull \hbox (24.78088pt too wide) in paragraph at lines 7418--7418 []\T1/pcr/m/n/10 statefig(layout, connect, margin = 0.03, box = TRUE, cex = 1, col = 1, [3646] [3647] [3648] [3649] [3650] Overfull \hbox (42.78088pt too wide) in paragraph at lines 7782--7782 []\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 7783--7783 []\T1/pcr/m/n/10 ci.r = FALSE, ci.rr = FALSE, totals=FALSE, legend = TRUE, vli ne = FALSE,[] [3651] [3652] [3653] [3654] [3655] Overfull \hbox (54.78088pt too wide) in paragraph at lines 8100--8100 [] \T1/pcr/m/n/10 type=c(\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 right\TS1/pcr/m/n/ 10 '\T1/pcr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 left\TS1/pcr/m/n/10 '\T1/p cr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 interval\TS1/pcr/m/n/10 '\T1/pcr/m/ n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 counting\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 , \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 interval2\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 , \T S1/pcr/m/n/10 '\T1/pcr/m/n/10 mstate\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ),[] [3656] [3657] [3658] Underfull \hbox (badness 1253) in paragraph at lines 8389--8392 []\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 [3659] [3660] Overfull \hbox (30.78088pt too wide) in paragraph at lines 8519--8519 []\T1/pcr/m/n/10 survcheck(formula, data, subset, na.action, id, istate, istat e0="(s0)", [3661] [3662] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8633--8633 []\T1/pcr/m/n/10 survcondense(formula, data, subset, weights, na.action= na.pa ss, id, [3663] [3664] [3665] Overfull \hbox (36.7804pt too wide) in paragraph at lines 8832--8832 [] \T1/pcr/m/n/9 rmap= list(age=(accept.dt - birth.dt), sex=1 , year=accept.dt),[] [3666] Overfull \hbox (24.78088pt too wide) in paragraph at lines 8857--8857 [] \T1/pcr/m/n/10 method=c("ederer", "hakulinen", "conditional", "indiv idual.h",[] Underfull \hbox (badness 1038) in paragraph at lines 8899--8905 []\T1/ptm/m/n/10 op-tion does not cre-ate a curve, rather it re-trieves the pre -dicted sur-vival [3667] Overfull \hbox (48.78088pt too wide) in paragraph at lines 8951--8951 [] \T1/pcr/m/n/10 rmap = list(year=entry.dt, age=(birth.d t-entry.dt)),[] [3668] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9037--9037 []\T1/pcr/m/n/9 summary(fit1, times=1:10*182.5, scale=365) #expected survival by 1/2 years[] [3669] [3670] [3671] Underfull \hbox (badness 10000) in paragraph at lines 9257--9262 [][][]\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 , Overfull \hbox (12.78088pt too wide) in paragraph at lines 9277--9277 [] \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 9278--9278 [] \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", "arcsin"),[] [3672] Overfull \hbox (18.78088pt too wide) in paragraph at lines 9283--9283 [] \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 9284--9284 [] \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", "arcsin"),[] [3673] [3674] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9507--9507 [] \T1/pcr/m/n/10 stype=1, ctype=1, id, cluster, robust, istate, timefi x=TRUE,[] [3675] [3676] Underfull \hbox (badness 2653) in paragraph at lines 9641--9646 \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, [3677] [3678] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9781--9781 []\T1/pcr/m/n/9 # There are no interval censored subjects, only left-censored (status=3),[] [3679] [3680] [3681] [3682] [3683] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10168--10168 []\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 10209--10213 []\T1/ptm/m/n/10 survival times, for time de-pen-dent pre-dic-tion. It gives th e time range [3684] Overfull \hbox (60.78088pt too wide) in paragraph at lines 10255--10255 []\T1/pcr/m/n/10 survConcordance(formula, data, weights, subset, na.action) # use concordance [3685] [3686] Underfull \hbox (badness 2035) in paragraph at lines 10419--10426 \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 10419--10426 \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 10419--10426 []\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 [3687] [3688] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10509--10509 []\T1/pcr/m/n/9 # There are multiple ways to parameterize a Weibull distributi on. The survreg[] [3689] [3690] Overfull \hbox (31.3804pt too wide) in paragraph at lines 10666--10666 [] \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 )[] [3691] [3692] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10798--10798 [] \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 10801--10801 [] \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 )[] [3693] [3694] [3695] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10961--10961 []\T1/pcr/m/n/9 pfit2 <- pyears(Surv(years, death) ~ fgrp + agegrp, scale =100 0, data=test)[] [3696] [3697] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11119--11119 []\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 11120--11120 []\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 11126--11126 [] \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 11128--11128 []\T1/pcr/m/n/9 fit <- coxph(Surv(tstart, tstop, endpt==2) ~ protime + log(bil i), data=pbc2)[] [3698] [3699] [3700] [3701] [3702] [3703] [3704] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11569--11569 []\T1/pcr/m/n/10 levels, test = c("global", "trend", "pairwise"), predict = "l inear",[] [3705] [3706] [3707]) [3708] (./fullrefman.ind [3709] [3710] [3711] [3712] [3713] [3714] [3715] [3716] [3717] [3718] [3719] [3720] [3721] [3722] [3723] [3724] [3725] [3726] [3727] [3728] [3729] [3730] [3731] [3732] [3733] Overfull \hbox (19.3567pt too wide) in paragraph at lines 2611--2613 []| \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 2613--2615 []| \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 2615--2617 []| \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 2617--2619 []| \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 2619--2621 []| \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 2621--2623 []| \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 2623--2625 []| \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 2625--2627 []| \T1/pcr/m/n/10 smooth.construct.ps.smooth.spec\T1/ptm/m/n/10 , 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Overfull \hbox (19.3567pt too wide) in paragraph at lines 3253--3255 []| \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 3255--3257 []| \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 3257--3259 []| \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 3259--3261 []| \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 3261--3263 []| \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 3263--3265 []| \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 3265--3267 []| \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 3267--3269 []| \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 3269--3271 []| \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 3271--3273 []| \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 3273--3275 []| \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 3275--3277 []| \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 3277--3279 []| \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 3279--3281 []| \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 3281--3283 []| \T1/pcr/m/n/10 smooth.construct.tp.smooth.spec\T1/ptm/m/n/10 , [3740] [3741] Overfull \hbox (19.3567pt too wide) in paragraph at lines 3437--3439 []| \T1/pcr/m/n/10 smooth.construct.so.smooth.spec\T1/ptm/m/n/10 , [3742] [3743] [3744] [3745] [3746] [3747] [3748] [3749] Overfull \hbox (62.8567pt too wide) in paragraph at lines 4588--4590 []\T1/pcr/m/n/10 [,CsparseMatrix,index,index,logical-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 4590--4592 []\T1/pcr/m/n/10 [,CsparseMatrix,index,missing,logical-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 4592--4594 []\T1/pcr/m/n/10 [,CsparseMatrix,missing,index,logical-method [3750] Overfull \hbox (20.8567pt too wide) in paragraph at lines 4596--4598 []\T1/pcr/m/n/10 [,Matrix,index,index,missing-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 4598--4600 []\T1/pcr/m/n/10 [,Matrix,index,missing,missing-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 4600--4602 []\T1/pcr/m/n/10 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wide) in paragraph at lines 4816--4818 []\T1/pcr/m/n/10 [<-,Matrix,lsparseMatrix,missing,replValue-method Overfull \hbox (62.8567pt too wide) in paragraph at lines 4818--4820 []\T1/pcr/m/n/10 [<-,Matrix,matrix,missing,replValue-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 4820--4822 []\T1/pcr/m/n/10 [<-,Matrix,missing,ANY,Matrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 4822--4824 []\T1/pcr/m/n/10 [<-,Matrix,missing,ANY,matrix-method Overfull \hbox (98.8567pt too wide) in paragraph at lines 4824--4826 []\T1/pcr/m/n/10 [<-,Matrix,ndenseMatrix,missing,replValue-method Overfull \hbox (104.8567pt too wide) in paragraph at lines 4826--4828 []\T1/pcr/m/n/10 [<-,Matrix,nsparseMatrix,missing,replValue-method Overfull \hbox (86.8567pt too wide) in paragraph at lines 4828--4830 []\T1/pcr/m/n/10 [<-,RsparseMatrix,index,index,replValue-method Overfull \hbox (104.8567pt too wide) in paragraph at lines 4830--4832 []\T1/pcr/m/n/10 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\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 , [3798] [3799] Overfull \hbox (20.8567pt too wide) in paragraph at lines 13135--13137 []\T1/pcr/m/n/10 groupGenericFunctionWithTrace-class [3800] [3801] [3802] [3803] Overfull \hbox (2.8567pt too wide) in paragraph at lines 13945--13947 []\T1/pcr/m/n/10 is.infinite,dsparseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 13961--13963 []\T1/pcr/m/n/10 is.infinite,nsparseVector-method [3804] [3805] Overfull \hbox (2.8567pt too wide) in paragraph at lines 14186--14188 []\T1/pcr/m/n/10 isDiagonal,diagonalMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 14198--14200 []\T1/pcr/m/n/10 isDiagonal,unpackedMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 14267--14269 []\T1/pcr/m/n/10 isSymmetric,diagonalMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 14297--14299 []\T1/pcr/m/n/10 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[]\T1/pcr/m/n/10 Logic,sparseVector,dMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15378--15380 []\T1/pcr/m/n/10 Logic,sparseVector,lMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15380--15382 []\T1/pcr/m/n/10 Logic,sparseVector,nMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 15382--15384 []\T1/pcr/m/n/10 Logic,sparseVector,sparseVector-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 15384--15386 []\T1/pcr/m/n/10 Logic,triangularMatrix,diagonalMatrix-method [3812] [3813] [3814] [3815] [3816] Overfull \hbox (52.01662pt too wide) in paragraph at lines 16457--16459 \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 , [3817] [3818] Overfull \hbox (8.8567pt too wide) in paragraph at lines 17059--17061 []\T1/pcr/m/n/10 nonstandardGenericWithTrace-class Overfull \hbox (8.8567pt too wide) in paragraph at lines 17078--17080 []\T1/pcr/m/n/10 norm,denseMatrix,character-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17082--17084 []\T1/pcr/m/n/10 norm,diagonalMatrix,character-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 17092--17094 []\T1/pcr/m/n/10 norm,sparseMatrix,character-method [3819] [3820] Overfull \hbox (26.8567pt too wide) in paragraph at lines 17368--17370 []\T1/pcr/m/n/10 Ops,atomicVector,sparseVector-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 17384--17386 []\T1/pcr/m/n/10 Ops,ddiMatrix,sparseMatrix-method Overfull \hbox (62.8567pt too wide) in paragraph at lines 17386--17388 []\T1/pcr/m/n/10 Ops,diagonalMatrix,triangularMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17406--17408 []\T1/pcr/m/n/10 Ops,dsparseMatrix,nsparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17408--17410 []\T1/pcr/m/n/10 Ops,ldenseMatrix,ldenseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 17424--17426 []\T1/pcr/m/n/10 Ops,ldiMatrix,sparseMatrix-method [3821] Overfull \hbox (38.8567pt too wide) in paragraph at lines 17438--17440 []\T1/pcr/m/n/10 Ops,lsparseMatrix,lsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17440--17442 []\T1/pcr/m/n/10 Ops,lsparseMatrix,nsparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17456--17458 []\T1/pcr/m/n/10 Ops,ndenseMatrix,ndenseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17466--17468 []\T1/pcr/m/n/10 Ops,nonStructure,nonStructure-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17470--17472 []\T1/pcr/m/n/10 Ops,nsparseMatrix,dsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17472--17474 []\T1/pcr/m/n/10 Ops,nsparseMatrix,lsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 17474--17476 []\T1/pcr/m/n/10 Ops,nsparseMatrix,sparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 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package_native_routine_registration_skeleton\T1/ptm/m/n/10 , [3823] [3824] [3825] [3826] [3827] [3828] Overfull \hbox (46.01662pt too wide) in paragraph at lines 19075--19077 \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 19078--19080 \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 19080--19082 \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 19082--19084 \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 19084--19086 \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 19086--19088 \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 19088--19090 \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 19090--19092 \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 19092--19094 \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 19094--19096 \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 (52.01662pt too wide) in paragraph at lines 19098--19100 \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 (4.01662pt too wide) in paragraph at lines 19100--19102 \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 (46.01662pt too wide) in paragraph at lines 19102--19104 \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 19104--19106 \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 19106--19108 \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 19108--19110 \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 19110--19112 \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 , [3829] [3830] Overfull \hbox (4.01662pt too wide) in paragraph at lines 19463--19465 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 getDLLRegisteredRoutines\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , [3831] Overfull \hbox (4.01662pt too wide) in paragraph at lines 19539--19541 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 getDLLRegisteredRoutines\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , [3832] [3833] Overfull \hbox (26.8567pt too wide) in paragraph at lines 20012--20014 []\T1/pcr/m/n/10 qr.coef,sparseQR,ddenseMatrix-method [3834] Overfull \hbox (38.8567pt too wide) in paragraph at lines 20021--20023 []\T1/pcr/m/n/10 qr.fitted,sparseQR,ddenseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20023--20025 []\T1/pcr/m/n/10 qr.fitted,sparseQR,Matrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20025--20027 []\T1/pcr/m/n/10 qr.fitted,sparseQR,matrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 20027--20029 []\T1/pcr/m/n/10 qr.fitted,sparseQR,numeric-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 20039--20041 []\T1/pcr/m/n/10 qr.qty,sparseQR,ddenseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 20049--20051 []\T1/pcr/m/n/10 qr.qy,sparseQR,ddenseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 20064--20066 []\T1/pcr/m/n/10 qr.resid,sparseQR,ddenseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20070--20072 []\T1/pcr/m/n/10 qr.resid,sparseQR,numeric-method [3835] Overfull \hbox (62.8567pt too wide) in paragraph at lines 20195--20197 []\T1/pcr/m/n/10 R_AVAILABLE_PACKAGES_CACHE_CONTROL_MAX_AGE [3836] Overfull \hbox (26.8567pt too wide) in paragraph at lines 20423--20425 []\T1/pcr/m/n/10 rbind2,atomicVector,ddiMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 20425--20427 []\T1/pcr/m/n/10 rbind2,atomicVector,ldiMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 20427--20429 []\T1/pcr/m/n/10 rbind2,atomicVector,Matrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 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20510--20512 []\T1/pcr/m/n/10 rcond,denseMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20512--20514 []\T1/pcr/m/n/10 rcond,dgeMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20514--20516 []\T1/pcr/m/n/10 rcond,dpoMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20516--20518 []\T1/pcr/m/n/10 rcond,dppMatrix,character-method [3837] Overfull \hbox (2.8567pt too wide) in paragraph at lines 20518--20520 []\T1/pcr/m/n/10 rcond,dspMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20520--20522 []\T1/pcr/m/n/10 rcond,dsyMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20522--20524 []\T1/pcr/m/n/10 rcond,dtpMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20524--20526 []\T1/pcr/m/n/10 rcond,dtrMatrix,character-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 20526--20528 []\T1/pcr/m/n/10 rcond,sparseMatrix,character-method [3838] [3839] [3840] [3841] Overfull \hbox (20.8567pt too wide) in paragraph at lines 21497--21499 []\T1/pcr/m/n/10 Schur,diagonalMatrix,logical-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 21501--21503 []\T1/pcr/m/n/10 Schur,generalMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 21509--21511 []\T1/pcr/m/n/10 Schur,symmetricMatrix,logical-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 21511--21513 []\T1/pcr/m/n/10 Schur,triangularMatrix,logical-method [3842] [3843] Overfull \hbox (26.8567pt too wide) in paragraph at lines 21898--21900 []\T1/pcr/m/n/10 show,genericFunctionWithTrace-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 21900--21902 \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 21904--21906 []\T1/pcr/m/n/10 show,MethodDefinitionWithTrace-method Overfull 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(\T1/pcr/m/sl/10 smooth.construct.so.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (5.3567pt too wide) in paragraph at lines 22195--22196 []\T1/pcr/m/n/10 smooth.construct.sos.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 22196--22198 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.so.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (23.3567pt too wide) in paragraph at lines 22203--22207 []\T1/pcr/m/n/10 smooth.construct.tensor.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 22208--22210 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.tp.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 22259--22261 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.so.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , [3846] Overfull \hbox (14.8567pt too wide) in paragraph at lines 22295--22297 []\T1/pcr/m/n/10 solve,CHMfactor,denseMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 22303--22305 []\T1/pcr/m/n/10 solve,CHMfactor,sparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 22319--22321 []\T1/pcr/m/n/10 solve,dgCMatrix,denseMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 22327--22329 []\T1/pcr/m/n/10 solve,dgCMatrix,sparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 22355--22357 []\T1/pcr/m/n/10 solve,dsCMatrix,denseMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 22363--22365 []\T1/pcr/m/n/10 solve,dsCMatrix,sparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 22381--22383 []\T1/pcr/m/n/10 solve,dtCMatrix,denseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 22383--22385 []\T1/pcr/m/n/10 solve,dtCMatrix,dgCMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 22385--22387 []\T1/pcr/m/n/10 solve,dtCMatrix,dgeMatrix-method Overfull \hbox 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paragraph at lines 22429--22431 []\T1/pcr/m/n/10 solve,matrix,sparseVector-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 22431--22433 []\T1/pcr/m/n/10 solve,MatrixFactorization,ANY-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 22433--22435 []\T1/pcr/m/n/10 solve,MatrixFactorization,missing-method Overfull \hbox (80.8567pt too wide) in paragraph at lines 22435--22437 []\T1/pcr/m/n/10 solve,MatrixFactorization,sparseVector-method [3848] Overfull \hbox (52.01662pt too wide) in paragraph at lines 22599--22601 \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 , [3849] [3850] Overfull \hbox (44.8567pt too wide) in paragraph at lines 23054--23056 []\T1/pcr/m/n/10 summarize_check_packages_in_dir_depends Overfull \hbox (44.8567pt too wide) in paragraph at lines 23056--23058 []\T1/pcr/m/n/10 summarize_check_packages_in_dir_results Overfull \hbox (44.8567pt too wide) in paragraph at lines 23058--23060 []\T1/pcr/m/n/10 summarize_check_packages_in_dir_timings [3851] [3852] [3853] [3854] Overfull \hbox (20.8567pt too wide) in paragraph at lines 23897--23899 []\T1/pcr/m/n/10 tcrossprod,ANY,RsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 23899--23901 []\T1/pcr/m/n/10 tcrossprod,ANY,symmetricMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 23901--23903 []\T1/pcr/m/n/10 tcrossprod,ANY,TsparseMatrix-method Overfull \hbox (80.8567pt too wide) in paragraph at lines 23903--23905 []\T1/pcr/m/n/10 tcrossprod,CsparseMatrix,CsparseMatrix-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 23905--23907 []\T1/pcr/m/n/10 tcrossprod,CsparseMatrix,ddenseMatrix-method Overfull \hbox (86.8567pt too wide) in paragraph at lines 23907--23909 []\T1/pcr/m/n/10 tcrossprod,CsparseMatrix,diagonalMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 23909--23911 []\T1/pcr/m/n/10 tcrossprod,CsparseMatrix,matrix-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 23911--23913 []\T1/pcr/m/n/10 tcrossprod,CsparseMatrix,missing-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 23913--23915 []\T1/pcr/m/n/10 tcrossprod,CsparseMatrix,numLike-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 23915--23917 []\T1/pcr/m/n/10 tcrossprod,ddenseMatrix,CsparseMatrix-method Overfull \hbox (68.8567pt too wide) in paragraph at lines 23917--23919 []\T1/pcr/m/n/10 tcrossprod,ddenseMatrix,ddenseMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 23919--23921 []\T1/pcr/m/n/10 tcrossprod,ddenseMatrix,dsCMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 23921--23923 []\T1/pcr/m/n/10 tcrossprod,ddenseMatrix,dtrMatrix-method Overfull \hbox (68.8567pt too wide) in paragraph at lines 23923--23925 []\T1/pcr/m/n/10 tcrossprod,ddenseMatrix,ldenseMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 23925--23927 []\T1/pcr/m/n/10 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fixed one {/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc}{/usr/share/texlive/ texmf-dist/fonts/enc/dvips/cm-super/cm-super-ts1.enc} < /usr/share/texlive/texmf-dist/fonts/type1/urw/helvetic/uhvr8a.pfb> Output written on fullrefman.pdf (3920 pages, 10854117 bytes). Transcript written on fullrefman.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-FAQ.texi @setfilename R-FAQ.info This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex) [1{/usr/share/texlive/te xmf-dist/fonts/map/pdftex/updmap/pdftex.map}] [-1] Chapter 1 Cross reference values unknown; you must run TeX again. [1] Chapter 2 [2] Underfull \hbox (badness 10000) in paragraph at lines 292--314 @textrm and sparc @reducedrm CPU[]@textrm s (e.g., [][]@texttt https:// buildd . debian. org/ build. php? & pkg=r-base[][][]@textrm ), [3] [4] [5] [6] [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] [18] Chapter 4 [19] Chapter 5 [20] [21] [22] [23] [24] Chapter 6 [25] [26] Chapter 7 [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] Writing index file R-FAQ.fn [39] [40] [41] [42] Chapter 8 [43] Chapter 9 [44] [45] [46] Chapter 10 [47] [48] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (50 pages, 353835 bytes). Transcript written on R-FAQ.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) 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Transcript written on R-FAQ.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex) [1{/usr/share/texlive/te xmf-dist/fonts/map/pdftex/updmap/pdftex.map}] (/builddir/build/BUILD/R-rc/doc/manual/R-FAQ.toc [-1] [-2]) [-3] (/builddir/build/BUILD/R-rc/doc/manual/R-FAQ.toc) (/builddir/build/BUILD/R-rc/doc/manual/R-FAQ.toc) Chapter 1 (/builddir/build/BUILD/R-rc/doc/manual/R-FAQ.aux) [1] Chapter 2 [2] Underfull \hbox (badness 10000) in paragraph at lines 292--314 @textrm and sparc @reducedrm CPU[]@textrm s (e.g., [][]@texttt https:// buildd . debian. org/ build. php? & pkg=r-base[][][]@textrm ), [3] [4] [5] [6] [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] Chapter 4 [18] Chapter 5 [19] [20] [21] [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] [39] [40] [41] Chapter 8 [42] Chapter 9 [43] [44] [45] Chapter 10 [46] [47] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (51 pages, 369737 bytes). Transcript written on R-FAQ.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-admin.texi @setfilename R-admin.info This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-admin.t2d/pdf/xtr/R-admin.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-admin.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-admin.cp Writing index file R-admin.en Underfull \hbox (badness 10000) in paragraph at lines 152--157 []@textrm The tar-balls are avail-able from [][]@texttt https:// stat. ethz. ch/ R/ daily/ [][][]@textrm . Down-load [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] Underfull \hbox (badness 10000) in paragraph at lines 1542--1546 []@textrm Parallel check-ing of pack-age sources (part of @texttt make check-de vel[] @textrm and @texttt make Chapter 4 [17] [18] [19] [20] Chapter 5 [21] Chapter 6 [22] [23] [24] [25] [26] Overfull \hbox (56.55324pt too wide) in paragraph at lines 2379--2379 []@texttt ./configure CC="clang -arch arm64" CFLAGS=-O2 CXX="clang++ -arch arm 64" CXXFLAGS=-O2[] [27] [28] [29] [30] Chapter 7 [31] [32] [33] Chapter 8 [34] Chapter 9 [35] [36] Appendix A [37] [38] [39] Overfull \hbox (27.8098pt too wide) in paragraph at lines 3336--3336 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] Appendix B [50] [51] [52] [53] [54] Appendix C [55] [56] [57] [58] [59] [60] Overfull \hbox (112.72658pt too wide) in paragraph at lines 5234--5234 []@texttt curl -OL https://mac.r-project.org/bin/darwin20/x86_64/pcre2-10.42-d arwin.20-x86_64.tar.xz[] Overfull \hbox (95.48051pt too wide) in paragraph at lines 5236--5236 []@texttt curl -OL https://mac.r-project.org/bin/darwin20/x86_64/xz-5.4.2-darw in.20-x86_64.tar.xz[] [61] Underfull \hbox (badness 10000) in paragraph at lines 5374--5375 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ [62] Underfull \hbox (badness 7256) in paragraph at lines 5406--5413 @textrm (de-faults to the com-mand line tools SDK). This can be up-dated by run -ning [63] Overfull \hbox (79.54799pt too wide) in paragraph at lines 5496--5496 []@texttt CC="$LOCAL/llvm/bin/clang -isysroot /Library/Developer/CommandLineTo ols/SDKs/MacOSX.sdk"[] Overfull \hbox (96.79405pt too wide) in paragraph at lines 5497--5497 []@texttt CXX="$LOCAL/llvm/bin/clang++ -isysroot /Library/Developer/CommandLin eTools/SDKs/MacOSX.sdk"[] Underfull \hbox (badness 10000) in paragraph at lines 5552--5552 [][][][][]@smalltt https:// cran. r-project. org/ bin/ macosx/ RMacOSX-FA Q. html# [64] [65] [66] [67] Overfull \hbox (20.74757pt too wide) in paragraph at lines 5833--5833 []@texttt opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0/libgfortran.5.d ylib \[] Overfull \hbox (20.74757pt too wide) in paragraph at lines 5838--5838 []@texttt opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0/libquadmath.0.d ylib \[] Underfull \hbox (badness 10000) in paragraph at lines 5858--5864 @textrm in @texttt src/Makevars[]@textrm . It would also be pos-si-ble to stat ic link the For- Underfull \hbox (badness 10000) in paragraph at lines 5858--5864 @textrm tran run-time li-braries @texttt /usr/local/gfortran/lib/libgfortran.a [] @textrm and Underfull \hbox (badness 10000) in paragraph at lines 5858--5864 @texttt /usr/local/gfortran/lib/libquadmath.a[] @textrm should the For-tran co m-piler have Overfull \hbox (50.80455pt too wide) in paragraph at lines 5880--5880 []@texttt FC="/opt//gfortran/bin/gfortran -arch x86_64 -mtune=native -mmacosx- version-min=11"[] [68] [69] (Function and variable index) [70] No file R-admin.vrs. (Concept index) [71] No file R-admin.cps. (Environment variable index) [72] No file R-admin.ens. [73] ) (see the transcript file for additional information)pdfTeX warning (dest): name {\040Tcl/Tk\040headers\040and\040libraries} has been referenced but does not ex ist, replaced by a fixed one Output written on R-admin.pdf (76 pages, 468544 bytes). Transcript written on R-admin.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-admin.t2d/pdf/xtr/R-admin.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-admin.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/fonts/map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-rc/doc/manual/R-admin.toc [-1] [-2]) [-3] (/builddir/build/BUILD/R-rc/doc/manual/R-admin.toc) (/builddir/build/BUILD/R-rc/doc/manual/R-admin.toc) Chapter 1 (/builddir/build/BUILD/R-rc/doc/manual/R-admin.aux) Writing index file R-admin.cp Writing index file R-admin.en Underfull \hbox (badness 10000) in paragraph at lines 152--157 []@textrm The tar-balls are avail-able from [][]@texttt https:// stat. ethz. ch/ R/ daily/ [][][]@textrm . Down-load [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] Chapter 3 [15] [16] Underfull \hbox (badness 10000) in paragraph at lines 1542--1546 []@textrm Parallel check-ing of pack-age sources (part of @texttt make check-de vel[] @textrm and @texttt make Chapter 4 [17] [18] [19] [20] Chapter 5 [21] Chapter 6 [22] [23] [24] [25] [26] Overfull \hbox (56.55324pt too wide) in paragraph at lines 2379--2379 []@texttt ./configure CC="clang -arch arm64" CFLAGS=-O2 CXX="clang++ -arch arm 64" CXXFLAGS=-O2[] [27] [28] [29] [30] Chapter 7 [31] [32] [33] Chapter 8 [34] Chapter 9 [35] [36] Appendix A [37] [38] [39] Overfull \hbox (27.8098pt too wide) in paragraph at lines 3336--3336 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] Appendix B [50] [51] [52] [53] [54] Appendix C [55] [56] [57] [58] [59] [60] Overfull \hbox (112.72658pt too wide) in paragraph at lines 5234--5234 []@texttt curl -OL https://mac.r-project.org/bin/darwin20/x86_64/pcre2-10.42-d arwin.20-x86_64.tar.xz[] Overfull \hbox (95.48051pt too wide) in paragraph at lines 5236--5236 []@texttt curl -OL https://mac.r-project.org/bin/darwin20/x86_64/xz-5.4.2-darw in.20-x86_64.tar.xz[] l.5283: Undefined cross reference ` Tcl/Tk headers and libraries-snt'. l.5283: Undefined cross reference ` Tcl/Tk headers and libraries-snt'. l.5283: Undefined cross reference ` Tcl/Tk headers and libraries-pg'. [61] Underfull \hbox (badness 10000) in paragraph at lines 5374--5375 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ [62] Underfull \hbox (badness 7256) in paragraph at lines 5406--5413 @textrm (de-faults to the com-mand line tools SDK). This can be up-dated by run -ning [63] Overfull \hbox (79.54799pt too wide) in paragraph at lines 5496--5496 []@texttt CC="$LOCAL/llvm/bin/clang -isysroot /Library/Developer/CommandLineTo ols/SDKs/MacOSX.sdk"[] Overfull \hbox (96.79405pt too wide) in paragraph at lines 5497--5497 []@texttt CXX="$LOCAL/llvm/bin/clang++ -isysroot /Library/Developer/CommandLin eTools/SDKs/MacOSX.sdk"[] Underfull \hbox (badness 10000) in paragraph at lines 5552--5552 [][][][][]@smalltt https:// cran. r-project. org/ bin/ macosx/ RMacOSX-FA Q. html# [64] [65] [66] [67] Overfull \hbox (20.74757pt too wide) in paragraph at lines 5833--5833 []@texttt opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0/libgfortran.5.d ylib \[] Overfull \hbox (20.74757pt too wide) in paragraph at lines 5838--5838 []@texttt opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0/libquadmath.0.d ylib \[] Underfull \hbox (badness 10000) in paragraph at lines 5858--5864 @textrm in @texttt src/Makevars[]@textrm . It would also be pos-si-ble to stat ic link the For- Underfull \hbox (badness 10000) in paragraph at lines 5858--5864 @textrm tran run-time li-braries @texttt /usr/local/gfortran/lib/libgfortran.a [] @textrm and Underfull \hbox (badness 10000) in paragraph at lines 5858--5864 @texttt /usr/local/gfortran/lib/libquadmath.a[] @textrm should the For-tran co m-piler have Overfull \hbox (50.80455pt too wide) in paragraph at lines 5880--5880 []@texttt FC="/opt//gfortran/bin/gfortran -arch x86_64 -mtune=native -mmacosx- version-min=11"[] [68] [69] (Function and variable index) [70] (/builddir/build/BUILD/R-rc/doc/manual/R-admin.vrs) (Concept index) [71] (/builddir/build/BUILD/R-rc/doc/manual/R-admin.cps) (Environment variable index) [72] (/builddir/build/BUILD/R-rc/doc/manual/R-admin.ens) [73] ) (see the transcript file for additional information)pdfTeX warning (dest): name {\040Tcl/Tk\040headers\040and\040libraries} has been referenced but does not ex ist, replaced by a fixed one Output written on R-admin.pdf (78 pages, 513154 bytes). Transcript written on R-admin.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-data.texi @setfilename R-data.info This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/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] Chapter 2 [5] [6] [7] [8] [9] [10] Chapter 3 [11] [12] Chapter 4 [13] [14] [15] [16] [17] [18] Chapter 5 [19] Chapter 6 [20] Chapter 7 [21] [22] [23] [24] Chapter 8 [25] Chapter 9 [26] Appendix A [27] (Function and variable index) [28] No file R-data.vrs. (Concept index) [29] No file R-data.cps. [30] )< /usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmbx12.pfb> Output written on R-data.pdf (33 pages, 265957 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/fonts/map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-rc/doc/manual/R-data.toc [-1]) [-2] (/builddir/build/BUILD/R-rc/doc/manual/R-data.toc) (/builddir/build/BUILD/R-rc/doc/manual/R-data.toc) (Acknowledgements) (/builddir/build/BUILD/R-rc/doc/manual/R-data.aux) Chapter 1 [1] Writing index file R-data.cp [2] [3] [4] Chapter 2 [5] [6] [7] [8] [9] [10] Chapter 3 [11] [12] Chapter 4 [13] [14] [15] [16] [17] [18] Chapter 5 [19] Chapter 6 [20] Chapter 7 [21] [22] [23] [24] Chapter 8 [25] Chapter 9 [26] Appendix A [27] (Function and variable index) [28] (/builddir/build/BUILD/R-rc/doc/manual/R-data.vrs [29]) (Concept index) [30] (/builddir/build/BUILD/R-rc/doc/manual/R-data.cps) [31] ) Output written on R-data.pdf (35 pages, 305629 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/fonts/map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-rc/doc/manual/R-data.toc [-1]) [-2] (/builddir/build/BUILD/R-rc/doc/manual/R-data.toc) (/builddir/build/BUILD/R-rc/doc/manual/R-data.toc) (Acknowledgements) (/builddir/build/BUILD/R-rc/doc/manual/R-data.aux) Chapter 1 [1] Writing index file R-data.cp [2] [3] [4] Chapter 2 [5] [6] [7] [8] [9] [10] Chapter 3 [11] [12] Chapter 4 [13] [14] [15] [16] [17] [18] Chapter 5 [19] Chapter 6 [20] Chapter 7 [21] [22] [23] [24] Chapter 8 [25] Chapter 9 [26] Appendix A [27] (Function and variable index) [28] (/builddir/build/BUILD/R-rc/doc/manual/R-data.vrs [29]) (Concept index) [30] (/builddir/build/BUILD/R-rc/doc/manual/R-data.cps) [31] ) Output written on R-data.pdf (35 pages, 305646 bytes). Transcript written on R-data.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-exts.texi @setfilename R-exts.info This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/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 499--502 []@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 1300--1301 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1301--1302 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1306--1308 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars.ucrt[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1306--1308 @texttt ~/.R/Makevars.win64[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1314--1315 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1315--1316 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1320--1322 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars.ucrt[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1320--1322 @texttt ~/.R/Makevars.win64[]@textrm , [15] [16] [17] Overfull \hbox (73.7993pt too wide) in paragraph at lines 1582--1582 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] [18] Overfull \hbox (50.80455pt too wide) in paragraph at lines 1583--1583 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (46.15797pt too wide) in paragraph at lines 2661--2661 []@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 2663--2663 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [31] [32] [33] [34] Underfull \hbox (badness 10000) in paragraph at lines 2989--2995 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][][] @smallrm or Overfull \hbox (39.30717pt too wide) in paragraph at lines 3064--3064 [] @texttt CXX="$(CXX17) $(CXX17STD)" CXXFLAGS="$(CXX17FLAGS) $(CXX 17PICFLAGS)")[] [35] [36] [37] Overfull \hbox (22.06111pt too wide) in paragraph at lines 3297--3297 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] Overfull \hbox (59.67485pt too wide) in paragraph at lines 4927--4927 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (37.99364pt too wide) in paragraph at lines 4946--4946 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX PICFLAGS`[] [56] [57] [58] [59] [60] Overfull \hbox (26.49626pt too wide) in paragraph at lines 5384--5384 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 (announced 19 20 21)[] Overfull \hbox (32.24495pt too wide) in paragraph at lines 5394--5394 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (26.49626pt too wide) in paragraph at lines 5396--5396 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (43.74232pt too wide) in paragraph at lines 5397--5397 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] [61] Overfull \hbox (55.2397pt too wide) in paragraph at lines 5412--5412 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] Underfull \hbox (badness 7558) in paragraph at lines 5471--5475 @texttt /Applications/CMake.app/Contents/bin/cmake[] @textrm and that should b e looked for [62] [63] [64] [65] [66] [67] [68] [69] Overfull \hbox (32.24495pt too wide) in paragraph at lines 6173--6173 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] [70] [71] [72] [73] [74] [75] Underfull \hbox (badness 10000) in paragraph at lines 6760--6770 []@textrm R-Forge ([][]R-Forge.r-project.org (@texttt https:// R-Forge. r-pro ject. org[]@textrm )[][]) and RForge [76] Chapter 2 [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] Underfull \hbox (badness 10000) in paragraph at lines 7810--7817 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [90] Underfull \hbox (badness 10000) in paragraph at lines 7989--7995 []@textrm The @texttt \out{@textttsl literal@texttt }[] @textrm macro would usu -ally be used within the @textsl text[] @textrm part of [91] [92] [93] [94] Chapter 3 [95] [96] [97] [98] [99] [100] [101] [102] Chapter 4 [103] [104] [105] [106] [107] Underfull \hbox (badness 10000) in paragraph at lines 9279--9288 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. [108] [109] [110] Underfull \hbox (badness 10000) in paragraph at lines 9552--9564 @textrm See [][]@texttt https:// clang. llvm. org/ docs/ UsersManual. htm l# controlling-code-generation[][][]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 9568--9569 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ [111] Overfull \hbox (56.55324pt too wide) in paragraph at lines 9707--9707 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] [112] Underfull \hbox (badness 10000) in paragraph at lines 9740--9742 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by [113] Overfull \hbox (50.80455pt too wide) in paragraph at lines 9886--9886 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [114] [115] [116] [117] [118] [119] Overfull \hbox (102.54274pt too wide) in paragraph at lines 10315--10315 []@texttt boot.f:61: warning: type of 'ddot' does not match original declarati on [-Wlto-type-mismatch][] Overfull \hbox (125.53749pt too wide) in paragraph at lines 10334--10334 []@texttt rkpk2.f:77:5: warning: type of 'dstup' does not match original decla ration [-Wlto-type-mismatch][] Overfull \hbox (119.7888pt too wide) in paragraph at lines 10345--10345 []@texttt reg.f:78:33: warning: type of 'dqrdc' does not match original declar ation [-Wlto-type-mismatch][] Overfull \hbox (22.06111pt too wide) in paragraph at lines 10375--10375 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to INTEGER(4)[] [120] Chapter 5 [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] Overfull \hbox (30.03963pt too wide) in paragraph at lines 11255--11255 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [131] [132] Overfull \hbox (39.30717pt too wide) in paragraph at lines 11419--11419 [] @texttt na_omit_xts_func fun = (na_omit_xts_func) R_GetCCallable("xts", "n a_omit_xts");[] [133] [134] [135] [136] [137] Overfull \hbox (16.31242pt too wide) in paragraph at lines 11853--11853 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] Underfull \hbox (badness 10000) in paragraph at lines 12863--12867 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] Overfull \hbox (22.06111pt too wide) in paragraph at lines 13961--13961 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [161] Overfull \hbox (50.80455pt too wide) in paragraph at lines 14056--14056 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] [162] Chapter 6 [163] [164] [165] [166] [167] [168] [169] Underfull \hbox (badness 10000) in paragraph at lines 14809--14814 @texttt fortran-compiler-oneapi-dev-guide-and-reference/ top/ compiler-refere nce/ [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] Warning: unbalanced parentheses in @def... [180] [181] [182] [183] [184] [185] Underfull \hbox (badness 10000) in paragraph at lines 16102--16108 []@textrm The graph-ics sys-tems are ex-posed in head-ers @texttt R_ext/Graphic sEngine.h[]@textrm , @texttt R_ Chapter 7 [186] [187] Chapter 8 [188] [189] [190] Overfull \hbox (22.06111pt too wide) in paragraph at lines 16520--16520 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [191] Overfull \hbox (33.55849pt too wide) in paragraph at lines 16578--16578 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [192] [193] [194] [195] [196] [197] Underfull \hbox (badness 10000) in paragraph at lines 17096--17103 @texttt MACHINE\Software\R-core\R\InstallPath[] @textrm from an ad-min-is-tra- tive in-stall and [198] [199] Underfull \hbox (badness 10000) in paragraph at lines 17231--17235 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [200] No file R-exts.vrs. (Concept index) [201] No file R-exts.cps. [202] ) (see the transcript file for additional information) Output written on R-exts.pdf (205 pages, 966737 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/fonts/map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-rc/doc/manual/R-exts.toc [-1] [-2] [-3]) [-4] (/builddir/build/BUILD/R-rc/doc/manual/R-exts.toc) (/builddir/build/BUILD/R-rc/doc/manual/R-exts.toc) (Acknowledgements) (/builddir/build/BUILD/R-rc/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 499--502 []@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 1300--1301 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1301--1302 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1306--1308 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars.ucrt[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1306--1308 @texttt ~/.R/Makevars.win64[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1314--1315 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1315--1316 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1320--1322 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars.ucrt[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1320--1322 @texttt ~/.R/Makevars.win64[]@textrm , [15] [16] [17] Overfull \hbox (73.7993pt too wide) in paragraph at lines 1582--1582 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] [18] Overfull \hbox (50.80455pt too wide) in paragraph at lines 1583--1583 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (46.15797pt too wide) in paragraph at lines 2661--2661 []@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 2663--2663 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [31] [32] [33] [34] Underfull \hbox (badness 10000) in paragraph at lines 2989--2995 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][][] @smallrm or Overfull \hbox (39.30717pt too wide) in paragraph at lines 3064--3064 [] @texttt CXX="$(CXX17) $(CXX17STD)" CXXFLAGS="$(CXX17FLAGS) $(CXX 17PICFLAGS)")[] [35] [36] [37] Overfull \hbox (22.06111pt too wide) in paragraph at lines 3297--3297 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] Overfull \hbox (59.67485pt too wide) in paragraph at lines 4927--4927 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (37.99364pt too wide) in paragraph at lines 4946--4946 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX PICFLAGS`[] [56] [57] [58] [59] [60] Overfull \hbox (26.49626pt too wide) in paragraph at lines 5384--5384 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 (announced 19 20 21)[] Overfull \hbox (32.24495pt too wide) in paragraph at lines 5394--5394 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (26.49626pt too wide) in paragraph at lines 5396--5396 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (43.74232pt too wide) in paragraph at lines 5397--5397 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] [61] Overfull \hbox (55.2397pt too wide) in paragraph at lines 5412--5412 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] Underfull \hbox (badness 7558) in paragraph at lines 5471--5475 @texttt /Applications/CMake.app/Contents/bin/cmake[] @textrm and that should b e looked for [62] [63] [64] [65] [66] [67] [68] [69] Overfull \hbox (32.24495pt too wide) in paragraph at lines 6173--6173 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] [70] [71] [72] [73] [74] [75] Underfull \hbox (badness 10000) in paragraph at lines 6760--6770 []@textrm R-Forge ([][]R-Forge.r-project.org (@texttt https:// R-Forge. r-pro ject. org[]@textrm )[][]) and RForge [76] Chapter 2 [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] Underfull \hbox (badness 10000) in paragraph at lines 7810--7817 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [90] Underfull \hbox (badness 10000) in paragraph at lines 7989--7995 []@textrm The @texttt \out{@textttsl literal@texttt }[] @textrm macro would usu -ally be used within the @textsl text[] @textrm part of [91] [92] [93] [94] Chapter 3 [95] [96] [97] [98] [99] [100] [101] [102] Chapter 4 [103] [104] [105] [106] [107] Underfull \hbox (badness 10000) in paragraph at lines 9279--9288 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. [108] [109] [110] Underfull \hbox (badness 10000) in paragraph at lines 9552--9564 @textrm See [][]@texttt https:// clang. llvm. org/ docs/ UsersManual. htm l# controlling-code-generation[][][]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 9568--9569 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ [111] Overfull \hbox (56.55324pt too wide) in paragraph at lines 9707--9707 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] [112] Underfull \hbox (badness 10000) in paragraph at lines 9740--9742 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by [113] Overfull \hbox (50.80455pt too wide) in paragraph at lines 9886--9886 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [114] [115] [116] [117] [118] [119] Overfull \hbox (102.54274pt too wide) in paragraph at lines 10315--10315 []@texttt boot.f:61: warning: type of 'ddot' does not match original declarati on [-Wlto-type-mismatch][] Overfull \hbox (125.53749pt too wide) in paragraph at lines 10334--10334 []@texttt rkpk2.f:77:5: warning: type of 'dstup' does not match original decla ration [-Wlto-type-mismatch][] Overfull \hbox (119.7888pt too wide) in paragraph at lines 10345--10345 []@texttt reg.f:78:33: warning: type of 'dqrdc' does not match original declar ation [-Wlto-type-mismatch][] Overfull \hbox (22.06111pt too wide) in paragraph at lines 10375--10375 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to INTEGER(4)[] [120] Chapter 5 [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] Overfull \hbox (30.03963pt too wide) in paragraph at lines 11255--11255 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [131] [132] Overfull \hbox (39.30717pt too wide) in paragraph at lines 11419--11419 [] @texttt na_omit_xts_func fun = (na_omit_xts_func) R_GetCCallable("xts", "n a_omit_xts");[] [133] [134] [135] [136] [137] Overfull \hbox (16.31242pt too wide) in paragraph at lines 11853--11853 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] Underfull \hbox (badness 10000) in paragraph at lines 12863--12867 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] Overfull \hbox (22.06111pt too wide) in paragraph at lines 13961--13961 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [161] Overfull \hbox (50.80455pt too wide) in paragraph at lines 14056--14056 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] [162] Chapter 6 [163] [164] [165] [166] [167] [168] [169] Underfull \hbox (badness 10000) in paragraph at lines 14809--14814 @texttt fortran-compiler-oneapi-dev-guide-and-reference/ top/ compiler-refere nce/ [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] Warning: unbalanced parentheses in @def... [180] [181] [182] [183] [184] [185] Underfull \hbox (badness 10000) in paragraph at lines 16102--16108 []@textrm The graph-ics sys-tems are ex-posed in head-ers @texttt R_ext/Graphic sEngine.h[]@textrm , @texttt R_ Chapter 7 [186] [187] Chapter 8 [188] [189] [190] Overfull \hbox (22.06111pt too wide) in paragraph at lines 16520--16520 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [191] Overfull \hbox (33.55849pt too wide) in paragraph at lines 16578--16578 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [192] [193] [194] [195] [196] [197] Underfull \hbox (badness 10000) in paragraph at lines 17096--17103 @texttt MACHINE\Software\R-core\R\InstallPath[] @textrm from an ad-min-is-tra- tive in-stall and [198] [199] Underfull \hbox (badness 10000) in paragraph at lines 17231--17235 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [200] (/builddir/build/BUILD/R-rc/doc/manual/R-exts.vrs [201] [202] [203] [204]) (Concept index) [205] (/builddir/build/BUILD/R-rc/doc/manual/R-exts.cps [206]) [207] ) (see the transcript file for additional information) Output written on R-exts.pdf (213 pages, 1044169 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/fonts/map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-rc/doc/manual/R-exts.toc [-1] [-2] [-3]) [-4] (/builddir/build/BUILD/R-rc/doc/manual/R-exts.toc) (/builddir/build/BUILD/R-rc/doc/manual/R-exts.toc) (Acknowledgements) (/builddir/build/BUILD/R-rc/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 499--502 []@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 1300--1301 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1301--1302 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1306--1308 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars.ucrt[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1306--1308 @texttt ~/.R/Makevars.win64[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1314--1315 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1315--1316 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1320--1322 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars.ucrt[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1320--1322 @texttt ~/.R/Makevars.win64[]@textrm , [15] [16] [17] Overfull \hbox (73.7993pt too wide) in paragraph at lines 1582--1582 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] [18] Overfull \hbox (50.80455pt too wide) in paragraph at lines 1583--1583 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (46.15797pt too wide) in paragraph at lines 2661--2661 []@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 2663--2663 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [31] [32] [33] [34] Underfull \hbox (badness 10000) in paragraph at lines 2989--2995 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][][] @smallrm or Overfull \hbox (39.30717pt too wide) in paragraph at lines 3064--3064 [] @texttt CXX="$(CXX17) $(CXX17STD)" CXXFLAGS="$(CXX17FLAGS) $(CXX 17PICFLAGS)")[] [35] [36] [37] Overfull \hbox (22.06111pt too wide) in paragraph at lines 3297--3297 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] Overfull \hbox (59.67485pt too wide) in paragraph at lines 4927--4927 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (37.99364pt too wide) in paragraph at lines 4946--4946 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX PICFLAGS`[] [56] [57] [58] [59] [60] Overfull \hbox (26.49626pt too wide) in paragraph at lines 5384--5384 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 (announced 19 20 21)[] Overfull \hbox (32.24495pt too wide) in paragraph at lines 5394--5394 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (26.49626pt too wide) in paragraph at lines 5396--5396 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (43.74232pt too wide) in paragraph at lines 5397--5397 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] [61] Overfull \hbox (55.2397pt too wide) in paragraph at lines 5412--5412 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] Underfull \hbox (badness 7558) in paragraph at lines 5471--5475 @texttt /Applications/CMake.app/Contents/bin/cmake[] @textrm and that should b e looked for [62] [63] [64] [65] [66] [67] [68] [69] Overfull \hbox (32.24495pt too wide) in paragraph at lines 6173--6173 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] [70] [71] [72] [73] [74] [75] Underfull \hbox (badness 10000) in paragraph at lines 6760--6770 []@textrm R-Forge ([][]R-Forge.r-project.org (@texttt https:// R-Forge. r-pro ject. org[]@textrm )[][]) and RForge [76] Chapter 2 [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] Underfull \hbox (badness 10000) in paragraph at lines 7810--7817 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [90] Underfull \hbox (badness 10000) in paragraph at lines 7989--7995 []@textrm The @texttt \out{@textttsl literal@texttt }[] @textrm macro would usu -ally be used within the @textsl text[] @textrm part of [91] [92] [93] [94] Chapter 3 [95] [96] [97] [98] [99] [100] [101] [102] Chapter 4 [103] [104] [105] [106] [107] Underfull \hbox (badness 10000) in paragraph at lines 9279--9288 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. [108] [109] [110] Underfull \hbox (badness 10000) in paragraph at lines 9552--9564 @textrm See [][]@texttt https:// clang. llvm. org/ docs/ UsersManual. htm l# controlling-code-generation[][][]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 9568--9569 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ [111] Overfull \hbox (56.55324pt too wide) in paragraph at lines 9707--9707 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] [112] Underfull \hbox (badness 10000) in paragraph at lines 9740--9742 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by [113] Overfull \hbox (50.80455pt too wide) in paragraph at lines 9886--9886 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [114] [115] [116] [117] [118] [119] Overfull \hbox (102.54274pt too wide) in paragraph at lines 10315--10315 []@texttt boot.f:61: warning: type of 'ddot' does not match original declarati on [-Wlto-type-mismatch][] Overfull \hbox (125.53749pt too wide) in paragraph at lines 10334--10334 []@texttt rkpk2.f:77:5: warning: type of 'dstup' does not match original decla ration [-Wlto-type-mismatch][] Overfull \hbox (119.7888pt too wide) in paragraph at lines 10345--10345 []@texttt reg.f:78:33: warning: type of 'dqrdc' does not match original declar ation [-Wlto-type-mismatch][] Overfull \hbox (22.06111pt too wide) in paragraph at lines 10375--10375 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to INTEGER(4)[] [120] Chapter 5 [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] Overfull \hbox (30.03963pt too wide) in paragraph at lines 11255--11255 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [131] [132] Overfull \hbox (39.30717pt too wide) in paragraph at lines 11419--11419 [] @texttt na_omit_xts_func fun = (na_omit_xts_func) R_GetCCallable("xts", "n a_omit_xts");[] [133] [134] [135] [136] [137] Overfull \hbox (16.31242pt too wide) in paragraph at lines 11853--11853 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] Underfull \hbox (badness 10000) in paragraph at lines 12863--12867 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] Overfull \hbox (22.06111pt too wide) in paragraph at lines 13961--13961 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [161] Overfull \hbox (50.80455pt too wide) in paragraph at lines 14056--14056 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] [162] Chapter 6 [163] [164] [165] [166] [167] [168] [169] Underfull \hbox (badness 10000) in paragraph at lines 14809--14814 @texttt fortran-compiler-oneapi-dev-guide-and-reference/ top/ compiler-refere nce/ [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] Warning: unbalanced parentheses in @def... [180] [181] [182] [183] [184] [185] Underfull \hbox (badness 10000) in paragraph at lines 16102--16108 []@textrm The graph-ics sys-tems are ex-posed in head-ers @texttt R_ext/Graphic sEngine.h[]@textrm , @texttt R_ Chapter 7 [186] [187] Chapter 8 [188] [189] [190] Overfull \hbox (22.06111pt too wide) in paragraph at lines 16520--16520 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [191] Overfull \hbox (33.55849pt too wide) in paragraph at lines 16578--16578 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [192] [193] [194] [195] [196] [197] Underfull \hbox (badness 10000) in paragraph at lines 17096--17103 @texttt MACHINE\Software\R-core\R\InstallPath[] @textrm from an ad-min-is-tra- tive in-stall and [198] [199] Underfull \hbox (badness 10000) in paragraph at lines 17231--17235 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [200] (/builddir/build/BUILD/R-rc/doc/manual/R-exts.vrs [201] [202] [203] [204]) (Concept index) [205] (/builddir/build/BUILD/R-rc/doc/manual/R-exts.cps [206]) [207] ) (see the transcript file for additional information) Output written on R-exts.pdf (213 pages, 1044149 bytes). Transcript written on R-exts.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-intro.texi @setfilename R-intro.info This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/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] [38] Chapter 9 [39] [40] Chapter 10 [41] [42] [43] [44] [45] [46] [47] [48] [49] Chapter 11 [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] Chapter 12 [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] Chapter 13 [76] [77] Chapter 14 [78] [79] Underfull \hbox (badness 10000) in paragraph at lines 6644--6649 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and Underfull \hbox (badness 7064) in paragraph at lines 6644--6649 @texttt \\?\UNC\server\dir1\dir2\file[]@textrm ) are not sup-ported, but they may work in [80] Appendix A [81] [82] [83] Appendix B [84] [85] [86] [87] [88] [89] [90] Appendix C [91] [92] Appendix D [93] No file R-intro.vrs. Appendix E [94] No file R-intro.cps. Appendix F [95] [96] ) (see the transcript file for additional information) Output written on R-intro.pdf (99 pages, 569421 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/fonts/map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-rc/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/builddir/build/BUILD/R-rc/doc/manual/R-intro.toc) (/builddir/build/BUILD/R-rc/doc/manual/R-intro.toc) (Preface) (/builddir/build/BUILD/R-rc/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] [38] Chapter 9 [39] [40] Chapter 10 [41] [42] [43] [44] [45] [46] [47] [48] [49] Chapter 11 [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] Chapter 12 [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] Chapter 13 [76] [77] Chapter 14 [78] [79] Underfull \hbox (badness 10000) in paragraph at lines 6644--6649 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and Underfull \hbox (badness 7064) in paragraph at lines 6644--6649 @texttt \\?\UNC\server\dir1\dir2\file[]@textrm ) are not sup-ported, but they may work in [80] Appendix A [81] [82] [83] Appendix B [84] [85] [86] [87] [88] [89] [90] Appendix C [91] [92] Appendix D [93] (/builddir/build/BUILD/R-rc/doc/manual/R-intro.vrs [94] [95]) Appendix E [96] (/builddir/build/BUILD/R-rc/doc/manual/R-intro.cps [97]) Appendix F [98] [99] ) (see the transcript file for additional information) Output written on R-intro.pdf (105 pages, 626487 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/fonts/map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-rc/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/builddir/build/BUILD/R-rc/doc/manual/R-intro.toc) (/builddir/build/BUILD/R-rc/doc/manual/R-intro.toc) (Preface) (/builddir/build/BUILD/R-rc/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] [38] Chapter 9 [39] [40] Chapter 10 [41] [42] [43] [44] [45] [46] [47] [48] [49] Chapter 11 [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] Chapter 12 [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] Chapter 13 [76] [77] Chapter 14 [78] [79] Underfull \hbox (badness 10000) in paragraph at lines 6644--6649 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and Underfull \hbox (badness 7064) in paragraph at lines 6644--6649 @texttt \\?\UNC\server\dir1\dir2\file[]@textrm ) are not sup-ported, but they may work in [80] Appendix A [81] [82] [83] Appendix B [84] [85] [86] [87] [88] [89] [90] Appendix C [91] [92] Appendix D [93] (/builddir/build/BUILD/R-rc/doc/manual/R-intro.vrs [94] [95]) Appendix E [96] (/builddir/build/BUILD/R-rc/doc/manual/R-intro.cps [97]) Appendix F [98] [99] ) (see the transcript file for additional information) Output written on R-intro.pdf (105 pages, 626475 bytes). Transcript written on R-intro.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-ints.texi @setfilename R-ints.info This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] Overfull \hbox (27.8098pt too wide) in paragraph at lines 1499--1499 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (56.55324pt too wide) in paragraph at lines 1500--1500 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (45.05586pt too wide) in paragraph at lines 1501--1501 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (137.03487pt too wide) in paragraph at lines 1502--1502 [] @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 3786--3795 @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 3786--3795 @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 3786--3795 @textrm frame-works can con-tain mul-ti-ple ver-sions of R. It even-tu-ally re- solves to [45] Chapter 8 [46] [47] Underfull \hbox (badness 10000) in paragraph at lines 4007--4012 @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] Chapter 9 [59] [60] Chapter 10 [61] Chapter 11 [62] Chapter 12 [63] [64] (Function and variable index) [65] No file R-ints.vrs. (Concept index) [66] No file R-ints.cps. [67] ) (see the transcript file for additional information) Output written on R-ints.pdf (70 pages, 413845 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/fonts/map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-rc/doc/manual/R-ints.toc [-1]) [-2] (/builddir/build/BUILD/R-rc/doc/manual/R-ints.toc) (/builddir/build/BUILD/R-rc/doc/manual/R-ints.toc) Chapter 1 (/builddir/build/BUILD/R-rc/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 1499--1499 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (56.55324pt too wide) in paragraph at lines 1500--1500 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (45.05586pt too wide) in paragraph at lines 1501--1501 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (137.03487pt too wide) in paragraph at lines 1502--1502 [] @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 3786--3795 @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 3786--3795 @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 3786--3795 @textrm frame-works can con-tain mul-ti-ple ver-sions of R. It even-tu-ally re- solves to [45] Chapter 8 [46] [47] Underfull \hbox (badness 10000) in paragraph at lines 4007--4012 @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] Chapter 9 [59] [60] Chapter 10 [61] Chapter 11 [62] Chapter 12 [63] [64] (Function and variable index) [65] (/builddir/build/BUILD/R-rc/doc/manual/R-ints.vrs [66]) (Concept index) [67] (/builddir/build/BUILD/R-rc/doc/manual/R-ints.cps) [68] ) (see the transcript file for additional information) Output written on R-ints.pdf (72 pages, 465616 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/fonts/map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-rc/doc/manual/R-ints.toc [-1]) [-2] (/builddir/build/BUILD/R-rc/doc/manual/R-ints.toc) (/builddir/build/BUILD/R-rc/doc/manual/R-ints.toc) Chapter 1 (/builddir/build/BUILD/R-rc/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 1499--1499 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (56.55324pt too wide) in paragraph at lines 1500--1500 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (45.05586pt too wide) in paragraph at lines 1501--1501 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (137.03487pt too wide) in paragraph at lines 1502--1502 [] @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 3786--3795 @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 3786--3795 @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 3786--3795 @textrm frame-works can con-tain mul-ti-ple ver-sions of R. It even-tu-ally re- solves to [45] Chapter 8 [46] [47] Underfull \hbox (badness 10000) in paragraph at lines 4007--4012 @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] Chapter 9 [59] [60] Chapter 10 [61] Chapter 11 [62] Chapter 12 [63] [64] (Function and variable index) [65] (/builddir/build/BUILD/R-rc/doc/manual/R-ints.vrs [66]) (Concept index) [67] (/builddir/build/BUILD/R-rc/doc/manual/R-ints.cps) [68] ) (see the transcript file for additional information) Output written on R-ints.pdf (72 pages, 465617 bytes). Transcript written on R-ints.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-lang.texi @setfilename R-lang.info This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/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 294--295 @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 4356--4358 []@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] (Function and Variable Index) [51] No file R-lang.vrs. (Concept Index) [52] No file R-lang.cps. Appendix A [53] [54] ) (see the transcript file for additional information) Output written on R-lang.pdf (57 pages, 340368 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/fonts/map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-rc/doc/manual/R-lang.toc [-1] [-2]) [-3] (/builddir/build/BUILD/R-rc/doc/manual/R-lang.toc) (/builddir/build/BUILD/R-rc/doc/manual/R-lang.toc) Chapter 1 (/builddir/build/BUILD/R-rc/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 294--295 @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 4356--4358 []@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] (Function and Variable Index) [51] (/builddir/build/BUILD/R-rc/doc/manual/R-lang.vrs [52]) (Concept Index) [53] (/builddir/build/BUILD/R-rc/doc/manual/R-lang.cps) Appendix A [54] [55] ) (see the transcript file for additional information) Output written on R-lang.pdf (60 pages, 386922 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/builddir/build/BUILD/R-rc/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-rc/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/builddir/build/BUILD/R-rc/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-rc/doc/manual/version.texi) [1{/usr/share/texlive/texm f-dist/fonts/map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-rc/doc/manual/R-lang.toc [-1] [-2]) [-3] (/builddir/build/BUILD/R-rc/doc/manual/R-lang.toc) (/builddir/build/BUILD/R-rc/doc/manual/R-lang.toc) Chapter 1 (/builddir/build/BUILD/R-rc/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 294--295 @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 4356--4358 []@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] (Function and Variable Index) [51] (/builddir/build/BUILD/R-rc/doc/manual/R-lang.vrs [52]) (Concept Index) [53] (/builddir/build/BUILD/R-rc/doc/manual/R-lang.cps) Appendix A [54] [55] ) (see the transcript file for additional information) Output written on R-lang.pdf (60 pages, 386926 bytes). Transcript written on R-lang.log. make[2]: Leaving directory '/builddir/build/BUILD/R-rc/doc/manual' make[1]: Leaving directory '/builddir/build/BUILD/R-rc/doc' + make compact-pdf make[1]: Entering directory '/builddir/build/BUILD/R-rc/doc/manual' compacting PDF manuals in doc/manual make[1]: Leaving directory '/builddir/build/BUILD/R-rc/doc/manual' + make info make[1]: Entering directory '/builddir/build/BUILD/R-rc/doc' make[2]: Entering directory '/builddir/build/BUILD/R-rc/doc/manual' /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-FAQ.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-admin.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-data.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-exts.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-intro.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-ints.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-lang.texi make[2]: Leaving directory '/builddir/build/BUILD/R-rc/doc/manual' make[1]: Leaving directory '/builddir/build/BUILD/R-rc/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.la9UY0 + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 ++ dirname /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 + cd R-rc + make DESTDIR=/builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 install install-pdf install-info mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R make[1]: Entering directory '/builddir/build/BUILD/R-rc/m4' make[1]: Nothing to be done for 'install'. make[1]: Leaving directory '/builddir/build/BUILD/R-rc/m4' make[1]: Entering directory '/builddir/build/BUILD/R-rc/tools' make[1]: Nothing to be done for 'install'. make[1]: Leaving directory '/builddir/build/BUILD/R-rc/tools' make[1]: Entering directory '/builddir/build/BUILD/R-rc/doc' installing doc ... mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/doc/R mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/man/man1 make[2]: Entering directory '/builddir/build/BUILD/R-rc/doc/html' installing doc/html ... mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/doc/R/html make[2]: Leaving directory '/builddir/build/BUILD/R-rc/doc/html' make[2]: Entering directory '/builddir/build/BUILD/R-rc/doc/manual' installing doc/manual ... mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/doc/R/manual mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/doc/R/manual/images make[2]: Leaving directory '/builddir/build/BUILD/R-rc/doc/manual' make[1]: Leaving directory '/builddir/build/BUILD/R-rc/doc' make[1]: Entering directory '/builddir/build/BUILD/R-rc/etc' mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/etc installing etc ... make[1]: Leaving directory '/builddir/build/BUILD/R-rc/etc' make[1]: Entering directory '/builddir/build/BUILD/R-rc/share' installing share ... mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/R mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/dictionaries mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/encodings mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/java mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/licenses mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/make mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/Rd mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/Rd/macros mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/sh mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/texmf mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/texmf/bibtex/bib mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/texmf/bibtex/bst mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/texmf/tex/latex make[1]: Leaving directory '/builddir/build/BUILD/R-rc/share' make[1]: Entering directory '/builddir/build/BUILD/R-rc/src' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/scripts' mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/bin mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/scripts' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/include' mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/include/R make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/include/R_ext' mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/include/R/R_ext make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/include/R_ext' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/include' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/extra' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/extra/blas' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/extra/blas' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/extra/tre' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/extra/tre' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/extra/tzone' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/extra/tzone' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/extra/xdr' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/extra/xdr' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/extra/intl' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/extra/intl' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/extra' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/appl' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/appl' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/nmath' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/nmath' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/unix' gcc -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -flto -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -DR_HOME='"/usr/lib64/R"' \ -o Rscript ./Rscript.c mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/pkgconfig make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/unix' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/main' mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/exec make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/main' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/main' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/main' mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/lib make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/main' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/main' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/modules' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/modules/internet' mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/modules make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules/internet' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/modules/lapack' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules/lapack' make[3]: Entering directory '/builddir/build/BUILD/R-rc/src/modules/X11' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules/X11' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/modules' make[2]: Entering directory '/builddir/build/BUILD/R-rc/src/library' mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library installing packages ... building HTML index ... make[2]: Leaving directory '/builddir/build/BUILD/R-rc/src/library' make[1]: Leaving directory '/builddir/build/BUILD/R-rc/src' make[1]: Entering directory '/builddir/build/BUILD/R-rc/tests' make[1]: Nothing to be done for 'install'. make[1]: Leaving directory '/builddir/build/BUILD/R-rc/tests' make[1]: Entering directory '/builddir/build/BUILD/R-rc/doc/manual' installing R manuals in PDF format ... make[1]: Leaving directory '/builddir/build/BUILD/R-rc/doc/manual' make[1]: Entering directory '/builddir/build/BUILD/R-rc/doc/manual' mkdir -p -- /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/info /usr/bin/install -c -m 644 "./dir" "/builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/info" installing R info pages ... updating '/usr/share/info/dir' ... make[1]: Leaving directory '/builddir/build/BUILD/R-rc/doc/manual' + rm -f /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/info/dir + mkdir -p /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/doc/R + install -p CAPABILITIES /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/doc/R + cd src/nmath/standalone + make install DESTDIR=/builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 make[1]: Entering directory '/builddir/build/BUILD/R-rc/src/include' make[1]: 'Rmath.h' is up to date. make[1]: Leaving directory '/builddir/build/BUILD/R-rc/src/include' + mkdir -p /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/etc/ld.so.conf.d + echo /usr/lib64/R/lib + mkdir -p /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/library + touch -r README /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.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-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/bin/R + sed -i 's|\..\/\..|/usr/lib64/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/doc/R/html/packages.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/KernSmooth/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/KernSmooth/html/bkde.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/KernSmooth/html/bkde2D.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/KernSmooth/html/bkfe.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/KernSmooth/html/dpih.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/KernSmooth/html/dpik.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/KernSmooth/html/dpill.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/KernSmooth/html/locpoly.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Aids2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Animals.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Boston.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Cars93.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Cushings.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/DDT.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/GAGurine.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Insurance.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/MASS-internal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Melanoma.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Null.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/OME.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Pima.tr.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Rabbit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Rubber.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/SP500.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Sitka.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Sitka89.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Skye.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/Traffic.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/UScereal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/UScrime.html + for i in 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/addterm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/anorexia.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/anova.negbin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/area.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/bacteria.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/bandwidth.nrd.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/bcv.html + for i in 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/birthwt.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/boxcox.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/cabbages.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/caith.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/cats.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/cement.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/chem.html + for i in 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/coop.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/corresp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/cov.rob.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/cov.trob.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/cpus.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/crabs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/deaths.html + for i in 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/dropterm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/eagles.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/epil.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/eqscplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/farms.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/fgl.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/fitdistr.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/forbes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/fractions.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/galaxies.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/gamma.dispersion.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/gamma.shape.glm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/gehan.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/genotype.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/geyser.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/gilgais.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/ginv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/glm.convert.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/glm.nb.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/glmmPQL.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/hills.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/hist.scott.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/housing.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/huber.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/hubers.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/immer.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/isoMDS.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/kde2d.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/lda.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/ldahist.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/leuk.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/lm.gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/lm.ridge.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/loglm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/loglm1.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/logtrans.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/lqs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/mammals.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/mca.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/mcycle.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/menarche.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/michelson.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/minn38.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/motors.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/muscle.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/mvrnorm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/negative.binomial.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/newcomb.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/nlschools.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/npk.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/npr1.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/oats.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/painters.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/pairs.lda.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/parcoord.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/petrol.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/phones.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/plot.lda.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/plot.mca.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/plot.profile.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/polr.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/predict.glmmPQL.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/predict.lda.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/predict.lqs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/predict.mca.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/predict.qda.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/profile.glm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/qda.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/quine.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/rational.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/renumerate.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/rlm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/rms.curv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/rnegbin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/road.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/rotifer.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/sammon.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/ships.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/shoes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/shrimp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/shuttle.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/snails.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/stdres.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/steam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/stepAIC.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/stormer.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/studres.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/summary.loglm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/summary.negbin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/summary.rlm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/survey.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/synth.tr.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/theta.md.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/topo.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/truehist.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/ucv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/waders.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/whiteside.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/width.SJ.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/write.matrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/MASS/html/wtloss.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/BunchKaufman-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/CAex.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/CHMfactor-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/Cholesky-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/Cholesky.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/CsparseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/Diagonal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/Hilbert.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/KNex.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/KhatriRao.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/LU-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/Matrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/Matrix-defunct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/Matrix-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/Matrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/MatrixClass.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/MatrixFactorization-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/RsparseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/Schur-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/Schur.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/SparseM-conv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/Subassign-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/TsparseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/USCounties.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/Xtrct-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/abIndex-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/abIseq.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/all-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/all.equal-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/atomicVector-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/band.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/bandSparse.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/bdiag.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/boolean-matprod.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/cBind.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/chol.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/chol2inv-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/colSums.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/compMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/condest.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/ddenseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/ddiMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/denseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dgCMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dgRMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dgTMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dgeMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/diagU2N.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/diagonalMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dimScale.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dmperm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dpoMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/drop0.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dsCMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dsRMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dsparseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dsyMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dtCMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dtRMatrix-class-def.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dtpMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/dtrMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/expand.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/expm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/externalFormats.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/facmul.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/fastMisc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/forceSymmetric.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/formatSparseM.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/generalMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/graph2T.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/image-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/indMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/index-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/invPerm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/is.na-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/is.null.DN.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/isSymmetric-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/isTriangular.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/kronecker-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/ldenseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/ldiMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/lgeMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/lsparseMatrix-classes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/lsyMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/ltrMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/lu.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/mat2triplet.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/matrix-products.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/nMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/ndenseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/nearPD.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/ngeMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/nnzero.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/norm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/nsparseMatrix-classes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/nsyMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/ntrMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/number-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/pMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/packedMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/printSpMatrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/qr-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/rankMatrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/rcond.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/rep2abI.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/replValue-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/rleDiff-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/rsparsematrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/solve-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/spMatrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/sparse.model.matrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/sparseLU-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/sparseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/sparseMatrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/sparseQR-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/sparseVector-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/sparseVector.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/symmetricMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/symmpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/triangularMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/uniqTsparse.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/unpack.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/unpackedMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/unused-classes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/updown.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/Matrix/html/wrld_1deg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Arithmetic.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/AsIs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Bessel.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/CallExternal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Colon.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Comparison.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Constants.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Control.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Cstack_info.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/DateTimeClasses.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Dates.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Defunct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Deprecated.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Encoding.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/EnvVar.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Extract.data.frame.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Extract.factor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Extract.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Extremes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Foreign-internal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Foreign.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Hyperbolic.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/ISOdatetime.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Internal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/InternalMethods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/La_library.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/La_version.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Last.value.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Log.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Logic.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/LongVectors.html + for i in 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/NA.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/NULL.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/NumericConstants.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Ops.Date.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Paren.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Platform.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Primitive.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Quotes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Random-user.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Random.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/RdUtils.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Recall.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Reserved.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Rhome.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Round.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/S3method.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Signals.html + for i in 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Syntax.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Sys.getenv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Sys.getpid.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Sys.glob.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Sys.info.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Sys.localeconv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Sys.readlink.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Sys.setFileTime.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Sys.setenv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Sys.sleep.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Sys.time.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Sys.which.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Trig.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/UTF8filepaths.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/UseMethod.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Vectorize.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/Version.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/abbreviate.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/agrep.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/all.equal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/all.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/allnames.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/any.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/aperm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/append.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/apply.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/args.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/array.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/array2DF.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/as.Date.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/as.POSIXlt.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/as.data.frame.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/as.environment.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/as.function.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/asplit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/assign.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/assignOps.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/attach.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/attr.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/attributes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/autoload.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/backsolve.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/balancePOSIXlt.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/base-defunct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/base-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/base-internal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/base-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/basename.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/bincode.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/bindenv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/bitwise.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/body.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/bquote.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/browser.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/browserText.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/builtins.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/by.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/c.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/call.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/callCC.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/capabilities.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/cat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/cbind.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/char.expand.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/character.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/charmatch.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/chartr.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/chkDots.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/chol.html + for i in 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/col.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/colSums.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/colnames.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/commandArgs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/comment.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/complex.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/conditions.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/conflicts.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/connections.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/contributors.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/copyright.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/crossprod.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/cumsum.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/curlGetHeaders.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/cut.POSIXt.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/cut.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/data.class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/data.frame.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/data.matrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/dataframeHelpers.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/date.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/dcf.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/debug.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/delayedAssign.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/deparse.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/deparseOpts.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/det.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/detach.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/dev.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/diag.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/diff.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/difftime.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/dim.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/dimnames.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/do.call.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/dontCheck.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/dots.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/double.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/dput.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/drop.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/droplevels.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/dump.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/duplicated.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/dynload.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/eapply.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/eigen.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/encodeString.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/environment.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/eval.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/exists.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/expand.grid.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/expression.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/extSoftVersion.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/factor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/file.access.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/file.choose.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/file.info.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/file.path.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/file.show.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/files.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/files2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/find.package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/findInterval.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/force.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/forceAndCall.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/formals.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/format.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/format.info.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/format.pval.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/formatDL.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/formatc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/function.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/funprog.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/gc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/gc.time.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/gctorture.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/get.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/getCallingDLL.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/getDLLRegisteredRoutines.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/getLoadedDLLs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/getNativeSymbolInfo.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/gettext.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/getwd.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/gl.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/grep.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/grepRaw.html + for i in 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/hexmode.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/iconv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/icuSetCollate.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/identical.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/identity.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/ifelse.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/integer.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/interaction.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/interactive.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/invisible.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/is.finite.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/is.function.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/is.language.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/is.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/is.recursive.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/is.single.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/is.unsorted.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/isR.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/isS4.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/isSymmetric.html + for i in 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/l10n_info.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/labels.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/lapply.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/lazyload.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/length.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/lengths.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/levels.html + for i in 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-i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/library.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/license.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/list.files.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/list.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/list2DF.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/list2env.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/load.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/locales.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/logical.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/lower.tri.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/ls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/make.names.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/make.unique.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/mapply.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/marginSums.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/mat.or.vec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/match.arg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/match.call.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/match.fun.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/match.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/matmult.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/matrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/maxCol.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/mean.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/memCompress.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/memlimits.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/memory.profile.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/merge.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/message.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/missing.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/mode.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/mtfrm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/name.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/names.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/nargs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/nchar.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/nlevels.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/noquote.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/norm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/normalizePath.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/notyet.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/nrow.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/ns-dblcolon.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/ns-hooks.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/ns-internal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/ns-load.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/ns-reflect.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/ns-topenv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/numeric.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/numeric_version.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/octmode.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/on.exit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/options.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/order.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/outer.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/parse.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/paste.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/path.expand.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/pcre_config.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/pipeOp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/plot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/pmatch.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/polyroot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/pos.to.env.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/pretty.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/print.dataframe.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/print.default.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/print.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/prmatrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/proc.time.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/prod.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/proportions.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/pushBack.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/qr.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/qraux.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/quit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/range.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/rank.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/rapply.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/raw.html + for i in 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/readChar.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/readLines.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/readRDS.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/readRenviron.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/readline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/reg.finalizer.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/regex.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/regmatches.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/rep.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/replace.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/rev.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/rle.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/rm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/round.POSIXt.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/row.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/row.names.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/rowsum.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/sQuote.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/sample.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/save.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/scale.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/scan.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/search.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/seek.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/seq.Date.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/seq.POSIXt.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/seq.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/sequence.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/serialize.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/setTimeLimit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/sets.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/shQuote.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/showConnections.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/sign.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/sink.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/slice.index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/slotOp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/socketSelect.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/solve.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/sort.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/source.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/split.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/sprintf.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/srcfile.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/standardGeneric.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/startsWith.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/stop.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/stopifnot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/strptime.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/strrep.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/strsplit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/strtoi.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/strtrim.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/structure.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/strwrap.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/subset.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/substitute.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/substr.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/sum.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/summary.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/svd.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/sweep.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/switch.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/sys.parent.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/sys.source.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/system.file.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/system.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/system.time.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/system2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/t.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/table.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/tabulate.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/tapply.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/taskCallback.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/taskCallbackManager.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/taskCallbackNames.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/tempfile.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/textconnections.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/tilde.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/timezones.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/toString.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/trace.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/traceback.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/tracemem.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/transform.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/trimws.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/try.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/typeof.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/unique.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/units.html + for i in 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/userhooks.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/utf8Conversion.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/validUTF8.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/vector.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/warning.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/warnings.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/weekday.POSIXt.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/which.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/which.min.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/with.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/withVisible.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/write.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/writeLines.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/xtfrm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/zMachine.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/zScript.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/zapsmall.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/zpackages.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/base/html/zutils.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/EEF.profile.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/Imp.Estimates.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/abc.ci.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/acme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/aids.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/aircondit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/amis.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/aml.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/beaver.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/bigcity.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/boot-practicals.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/boot.array.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/boot.ci.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/boot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/brambles.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/breslow.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/calcium.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/cane.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/capability.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/catsM.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/cav.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/cd4.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/cd4.nested.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/censboot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/channing.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/claridge.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/cloth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/co.transfer.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/coal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/control.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/corr.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/cum3.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/cv.glm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/darwin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/dogs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/downs.bc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/ducks.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/empinf.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/envelope.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/exp.tilt.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/fir.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/freq.array.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/frets.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/glm.diag.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/glm.diag.plots.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/gravity.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/hirose.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/imp.weights.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/inv.logit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/islay.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/jack.after.boot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/k3.linear.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/linear.approx.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/lines.saddle.distn.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/logit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/manaus.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/melanoma.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/motor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/neuro.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/nitrofen.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/nodal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/norm.ci.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/nuclear.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/paulsen.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/plot.boot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/poisons.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/polar.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/print.boot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/print.bootci.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/print.saddle.distn.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/print.simplex.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/remission.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/saddle.distn.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/saddle.distn.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/saddle.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/salinity.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/simplex.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/simplex.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/smooth.f.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/sunspot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/survival.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/tau.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/tilt.boot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/tsboot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/tuna.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/urine.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/var.linear.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/boot/html/wool.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/SOM.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/batchSOM.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/condense.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/knn.cv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/knn.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/knn1.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/lvq1.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/lvq2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/lvq3.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/lvqinit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/lvqtest.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/multiedit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/olvq1.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/reduce.nn.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/class/html/somgrid.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/agnes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/agnes.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/agriculture.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/animals.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/bannerplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/chorSub.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/clara.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/clara.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/clusGap.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/clusplot.default.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/clusplot.partition.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/cluster-internal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/coef.hclust.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/daisy.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/diana.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/dissimilarity.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/ellipsoidhull.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/fanny.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/fanny.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/flower.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/lower.to.upper.tri.inds.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/medoids.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/mona.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/mona.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/pam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/pam.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/partition.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/plantTraits.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/plot.agnes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/plot.diana.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/plot.mona.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/plot.partition.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/pltree.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/pluton.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/predict.ellipsoid.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/print.agnes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/print.clara.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/print.diana.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/print.dissimilarity.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/print.fanny.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/print.mona.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/print.pam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/ruspini.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/silhouette.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/sizeDiss.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/summary.agnes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/summary.clara.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/summary.diana.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/summary.mona.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/summary.pam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/twins.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/volume.ellipsoid.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/votes.repub.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/cluster/html/xclara.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/codetools/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/codetools/html/checkUsage.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/codetools/html/codetools.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/codetools/html/findGlobals.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/codetools/html/showTree.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/compiler/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/compiler/html/compile.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/AirPassengers.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/BJsales.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/BOD.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/ChickWeight.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/DNase.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/EuStockMarkets.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/Formaldehyde.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/HairEyeColor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/Harman23.cor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/Harman74.cor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/Indometh.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/InsectSprays.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/JohnsonJohnson.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/LakeHuron.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/LifeCycleSavings.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/Loblolly.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/Nile.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/Orange.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/OrchardSprays.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/PlantGrowth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/Puromycin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/Theoph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/Titanic.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/ToothGrowth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/UCBAdmissions.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/UKDriverDeaths.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/UKLungDeaths.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/UKgas.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/USAccDeaths.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/USArrests.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/USJudgeRatings.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/USPersonalExpenditure.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/VADeaths.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/WWWusage.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/WorldPhones.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/ability.cov.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/airmiles.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/airquality.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/anscombe.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/attenu.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/attitude.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/austres.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/beavers.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/cars.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/chickwts.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/co2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/crimtab.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/datasets-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/discoveries.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/esoph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/euro.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/eurodist.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/faithful.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/freeny.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/infert.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/iris.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/islands.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/lh.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/longley.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/lynx.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/morley.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/mtcars.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/nhtemp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/nottem.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/npk.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/occupationalStatus.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/precip.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/presidents.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/pressure.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/quakes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/randu.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/rivers.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/rock.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/sleep.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/stackloss.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/state.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/sunspot.month.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/sunspot.year.html + for i in 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/trees.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/uspop.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/volcano.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/warpbreaks.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/women.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/datasets/html/zCO2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/lookup.xport.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/read.S.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/read.arff.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/read.dbf.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/read.dta.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/read.epiinfo.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/read.mtp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/read.octave.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/read.spss.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/read.ssd.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/read.systat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/read.xport.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/write.arff.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/write.dbf.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/write.dta.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/foreign/html/write.foreign.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/Devices.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/Hershey.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/Japanese.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/Type1Font.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/adjustcolor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/as.graphicsAnnot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/as.raster.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/axisTicks.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/boxplot.stats.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/bringToTop.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/cairo.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/cairoSymbolFont.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/check.options.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/chull.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/cm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/col2rgb.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/colorRamp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/colors.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/contourLines.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/convertColor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/densCols.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/dev.capabilities.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/dev.capture.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/dev.flush.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/dev.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/dev.interactive.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/dev.size.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/dev2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/dev2bitmap.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/devAskNewPage.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/embedFonts.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/extendrange.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/getGraphicsEvent.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/glyphInfo.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/grDevices-internal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/grDevices-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/grSoftVersion.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/gray.colors.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/gray.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/hcl.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/hsv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/make.rgb.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/msgWindow.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/n2mfrow.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/nclass.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/palette.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/palettes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/pdf.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/pdf.options.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/pictex.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/plotmath.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/png.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/postscript.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/postscriptFonts.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/pretty.Date.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/ps.options.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/quartz.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/quartzFonts.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/recordGraphics.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/recordplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/rgb.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/rgb2hsv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/savePlot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/trans3d.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/windows.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/windows.options.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/windowsFonts.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/x11.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/x11Fonts.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/xfig.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/xy.coords.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/xyTable.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grDevices/html/xyz.coords.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/abline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/arrows.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/assocplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/axTicks.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/axis.POSIXct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/axis.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/barplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/box.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/boxplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/boxplot.matrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/bxp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/cdplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/clip.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/contour.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/convertXY.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/coplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/curve.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/dotchart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/filled.contour.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/fourfoldplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/frame.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/graphics-defunct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/graphics-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/grid.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/hist.POSIXt.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/hist.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/identify.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/image.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/layout.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/legend.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/lines.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/locator.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/matplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/mosaicplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/mtext.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/pairs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/panel.smooth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/par.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/persp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/pie.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/plot.dataframe.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/plot.default.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/plot.design.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/plot.factor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/plot.formula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/plot.raster.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/plot.table.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/plot.window.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/plot.xy.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/plothistogram.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/points.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/polygon.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/polypath.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/rasterImage.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/rect.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/rug.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/screen.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/segments.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/smoothScatter.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/spineplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/stars.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/stem.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/stripchart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/strwidth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/sunflowerplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/symbols.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/text.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/title.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/units.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/xspline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/graphics/html/zAxis.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/Grid.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/absolute.size.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/arrow.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/as.mask.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/calcStringMetric.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/current.viewport.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/dataViewport.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/depth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/deviceLoc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/drawDetails.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/editDetails.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/editViewport.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/explode.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/gEdit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/gPath.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/getNames.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/gpar.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid-defunct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid-internal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.DLapply.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.add.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.bezier.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.cap.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.circle.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.clip.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.convert.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.copy.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.curve.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.delay.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.display.list.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.draw.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.edit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.force.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.frame.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.function.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.get.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.glyph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.grab.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.grep.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.grill.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.grob.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.group.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.layout.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.lines.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.locator.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.ls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.move.to.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.newpage.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.null.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.pack.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.path.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.place.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.plot.and.legend.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.points.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.polygon.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.pretty.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.raster.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.record.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.rect.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.refresh.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.remove.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.reorder.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.roundrect.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.segments.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.set.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.show.layout.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.show.viewport.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.stroke.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.text.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.xaxis.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.xspline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grid.yaxis.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/gridCoords.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grobCoords.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grobName.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grobWidth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/grobX.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/legendGrob.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/makeContent.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/patterns.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/plotViewport.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/resolveRasterSize.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/showGrob.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/showViewport.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/stringWidth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/unit.c.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/unit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/unit.length.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/unit.pmin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/unit.rep.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/unitType.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/valid.just.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/validDetails.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/viewport.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/viewportTransform.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/viewports.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/vpPath.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/widthDetails.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/xDetails.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/grid/html/xsplinePoints.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/Lattice.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/Rows.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/USMortality.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/axis.default.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/banking.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/barchart.table.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/barley.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/cloud.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/draw.colorkey.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/draw.key.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/environmental.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/ethanol.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/histogram.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/interaction.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/lattice.options.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/latticeParseFormula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/level.colors.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/levelplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/llines.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/lset.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/make.groups.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/melanoma.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/oneway.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/packet.panel.default.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.axis.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.barchart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.bwplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.cloud.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.densityplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.dotplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.functions.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.histogram.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.levelplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.loess.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.number.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.pairs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.parallel.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.qqmath.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.qqmathline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.smoothScatter.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.spline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.stripplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.superpose.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.violin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/panel.xyplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/prepanel.default.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/prepanel.functions.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/print.trellis.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/qq.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/qqmath.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/rfs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/shingles.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/simpleKey.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/simpleTheme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/singer.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/splom.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/standard.theme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/strip.default.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/tmd.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/trellis.device.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/trellis.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/trellis.par.get.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/update.trellis.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/utilities.3d.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/xyplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/lattice/html/xyplot.ts.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/BasicClasses.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/Classes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/Classes_Details.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/Documentation.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/EmptyMethodsList-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/EnvironmentClass.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/GenericFunctions.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/Introduction.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/LanguageClasses.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/LinearMethodsList-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/MethodDefinition-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/MethodSupport.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/MethodWithNext-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/Methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/MethodsList-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/MethodsList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/Methods_Details.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/Methods_for_Nongenerics.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/Methods_for_S3.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/NextMethod.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/ObjectsWithPackage-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/RClassUtils.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/RMethodUtils.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/S3Part.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/S4groupGeneric.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/SClassExtension-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/StructureClasses.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/TraceClasses.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/as.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/callGeneric.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/canCoerce.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/cbind2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/className.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/classRepresentation-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/classesToAM.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/dotsMethods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/evalSource.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/findClass.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/findMethods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/fixPrevious.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/genericFunction-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/getClass.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/getMethod.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/getPackageName.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/hasArg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/implicitGeneric.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/inheritedSlotNames.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/initialize-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/is.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/isSealedMethod.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/languageEl.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/localRefClass.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/method.skeleton.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/methodUtilities.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/methods-defunct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/methods-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/methods-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/new.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/nonStructure-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/promptClass.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/promptMethods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/refClass.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/removeMethod.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/representation.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/selectSuperClasses.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/setAs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/setClass.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/setClassUnion.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/setGeneric.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/setGroupGeneric.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/setIs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/setLoadActions.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/setMethod.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/setOldClass.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/setSClass.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/show.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/showMethods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/signature-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/slot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/stdRefClass.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/substituteDirect.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/testInheritedMethods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/validObject.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/methods/html/zBasicFunsList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/Beta.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/FFdes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/Predict.matrix.cr.smooth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/Predict.matrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/Predict.matrix.soap.film.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/Rrank.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/Sl.initial.repara.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/Sl.repara.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/Sl.setup.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/Tweedie.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/XWXd.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/anova.gam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/bam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/bam.update.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/bandchol.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/blas.thread.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/bug.reports.mgcv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/cSplineDes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/chol.down.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/choose.k.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/cnorm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/columb.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/concurvity.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/coxph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/coxpht.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/dDeta.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/dpnorm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/exclude.too.far.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/extract.lme.cov.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/factor.smooth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/family.mgcv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/fix.family.link.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/fixDependence.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/formXtViX.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/formula.gam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/fs.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/full.score.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.check.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.control.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.convergence.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.fit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.fit3.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.fit5.post.proc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.mh.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.models.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.outer.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.reparam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.scale.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.selection.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.side.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam.vcomp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gam2objective.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gamObject.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gamSim.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gamlss.etamu.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gamlss.gH.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gamm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gammals.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gaulss.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/get.var.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gevlss.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/ginla.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/gumbls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/identifiability.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/in.out.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/inSide.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/influence.gam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/initial.sp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/interpret.gam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/jagam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/k.check.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/ldTweedie.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/ldetS.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/linear.functional.terms.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/logLik.gam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/ls.size.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/magic.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/magic.post.proc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/mgcv-FAQ.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/mgcv-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/mgcv-parallel.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/mini.roots.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/missing.data.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/model.matrix.gam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/mono.con.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/mroot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/multinom.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/mvn.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/negbin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/new.name.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/notExp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/notExp2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/null.space.dimension.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/ocat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/one.se.rule.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/pcls.html 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/place.knots.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/plot.gam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/polys.plot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' 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for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/residuals.gam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/rig.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/rmvn.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/s.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/scat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/sdiag.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/shash.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/single.index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/slanczos.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.ad.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.bs.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.cr.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.ds.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.fs.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.gp.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.mrf.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.ps.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.re.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.so.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.sos.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' 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/builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.tp.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.info.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth.terms.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smooth2random.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/smoothCon.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/sp.vcov.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/spasm.construct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/step.gam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/summary.gam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/t2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/te.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/tensor.prod.model.matrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/totalPenaltySpace.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/trichol.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/trind.generator.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/twlss.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/uniquecombs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/vcov.gam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/vis.gam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/ziP.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/html/ziplss.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/ACF.gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/ACF.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/ACF.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Alfalfa.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Assay.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/BodyWeight.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Cefamandole.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Coef.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Covariate.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Covariate.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Dialyzer.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Dim.corSpatial.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Dim.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Dim.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Dim.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Earthquake.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Extract.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Fatigue.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Gasoline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Glucose.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Glucose2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Gun.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/IGF.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Initialize.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Initialize.glsStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Initialize.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Initialize.lmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Initialize.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Initialize.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/LDEsysMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Machines.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/MathAchSchool.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/MathAchieve.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Matrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Matrix.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Matrix.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Meat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Milk.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Muscle.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Names.formula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Names.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Names.pdBlocked.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Names.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Names.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Nitrendipene.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Oats.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Orthodont.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Ovary.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Oxboys.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Oxide.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/PBG.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Phenobarb.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Pixel.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Quinidine.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Rail.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/RatPupWeight.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Relaxin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Remifentanil.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Soybean.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Spruce.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Tetracycline1.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Tetracycline2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/VarCorr.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Variogram.corExp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Variogram.corGaus.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Variogram.corLin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Variogram.corRatio.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Variogram.corSpatial.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Variogram.corSpher.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Variogram.default.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Variogram.gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Variogram.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Variogram.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Wafer.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Wheat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/Wheat2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/allCoef.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/anova.gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/anova.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/as.matrix.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/as.matrix.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/as.matrix.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/asOneFormula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/asTable.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/augPred.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/balancedGrouped.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/bdf.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/coef.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/coef.gnls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/coef.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/coef.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/coef.modelStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/coef.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/coef.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/coef.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/collapse.groupedData.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/collapse.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/compareFits.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/comparePred.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corAR1.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corARMA.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corCAR1.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corClasses.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corCompSymm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corExp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corFactor.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corFactor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corGaus.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corLin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corMatrix.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corMatrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corMatrix.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corMatrix.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corNatural.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corRatio.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corSpatial.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corSpher.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/corSymm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/ergoStool.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/fdHess.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/fitted.glsStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/fitted.gnlsStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/fitted.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/fitted.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/fitted.lmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/fitted.nlmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/fixed.effects.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/fixef.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/formula.pdBlocked.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/formula.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/formula.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/gapply.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getCovariate.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getCovariate.data.frame.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getCovariate.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getCovariate.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getCovariateFormula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getData.gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getData.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getData.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getData.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getGroups.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getGroups.data.frame.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getGroups.gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getGroups.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getGroups.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getGroups.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getGroups.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getGroupsFormula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getResponse.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getResponseFormula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/getVarCov.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/gls-internal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/glsControl.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/glsObject.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/glsStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/gnls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/gnlsControl.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/gnlsObject.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/gnlsStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/groupedData.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/gsummary.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/intervals.gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/intervals.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/intervals.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/intervals.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/isBalanced.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/isInitialized.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/lmList.groupedData.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/lme.groupedData.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/lme.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/lmeControl.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/lmeObject.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/lmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/logDet.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/logDet.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/logDet.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/logDet.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/logLik.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/logLik.glsStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/logLik.gnls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/logLik.gnlsStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/logLik.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/logLik.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/logLik.lmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/logLik.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/logLik.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/model.matrix.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/needUpdate.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/needUpdate.modelStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/nlme-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/nlme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/nlme.nlsList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/nlmeControl.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/nlmeObject.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/nlmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/nlsList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/nlsList.selfStart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pairs.compareFits.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pairs.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pairs.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdBlocked.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdClasses.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdCompSymm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdConstruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdConstruct.pdBlocked.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdDiag.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdFactor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdFactor.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdIdent.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdLogChol.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdMatrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdMatrix.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdNatural.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pdSymm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/phenoModel.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/plot.ACF.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/plot.Variogram.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/plot.augPred.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/plot.compareFits.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/plot.gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/plot.intervals.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/plot.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/plot.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/plot.nffGroupedData.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/plot.nfnGroupedData.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/plot.nmGroupedData.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/plot.ranef.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/plot.ranef.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/pooledSD.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/predict.gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/predict.gnls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/predict.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/predict.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/predict.nlme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/print.summary.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/print.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/qqnorm.gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/qqnorm.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/quinModel.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/random.effects.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/ranef.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/ranef.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/recalc.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/recalc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/recalc.modelStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/recalc.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/recalc.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/residuals.gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/residuals.glsStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/residuals.gnlsStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/residuals.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/residuals.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/residuals.lmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/residuals.nlmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/simulate.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/solve.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/solve.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/splitFormula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/summary.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/summary.gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/summary.lmList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/summary.lme.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/summary.modelStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/summary.nlsList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/summary.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/summary.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/update.modelStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/update.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/varClasses.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/varComb.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/varConstPower.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/varConstProp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/varExp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/varFixed.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/varFunc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/varIdent.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/varPower.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/varWeights.glsStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/varWeights.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nlme/html/varWeights.lmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nnet/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nnet/html/class.ind.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nnet/html/multinom.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nnet/html/nnet.Hess.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nnet/html/nnet.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nnet/html/predict.nnet.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/nnet/html/which.is.max.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/parallel/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/parallel/html/RngStream.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/parallel/html/children.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/parallel/html/clusterApply.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/parallel/html/detectCores.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/parallel/html/makeCluster.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/parallel/html/mcaffinity.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/parallel/html/mcfork.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/parallel/html/mclapply.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/parallel/html/mcparallel.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/parallel/html/parallel-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/parallel/html/pvec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/parallel/html/splitIndices.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/car.test.frame.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/car90.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/cu.summary.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/kyphosis.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/labels.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/meanvar.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/na.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/path.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/plot.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/plotcp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/post.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/predict.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/print.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/printcp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/prune.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/residuals.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/rpart-internal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/rpart.control.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/rpart.exp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/rpart.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/rsq.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/snip.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/solder.balance.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/stagec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/summary.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/text.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/rpart/html/xpred.rpart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/Kaver.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/Kenvl.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/Kfn.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/Psim.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/SSI.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/Strauss.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/anova.trls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/correlogram.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/expcov.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/ppgetregion.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/ppinit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/pplik.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/ppregion.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/predict.trls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/prmat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/semat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/surf.gls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/surf.ls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/trls.influence.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/trmat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/spatial/html/variogram.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/asVector.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/backSpline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/bs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/interpSpline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/ns.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/periodicSpline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/polySpline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/predict.bSpline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/predict.bs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/splineDesign.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/splineKnots.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/splineOrder.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/splines-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/splines/html/xyVector.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/AIC.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ARMAacf.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ARMAtoMA.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Beta.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Binomial.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Cauchy.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Chisquare.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Distributions.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Exponential.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Fdist.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/GammaDist.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Geometric.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/HoltWinters.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Hypergeometric.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/IQR.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/KalmanLike.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Logistic.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Lognormal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Multinom.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/NLSstAsymptotic.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/NLSstClosestX.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/NLSstLfAsymptote.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/NLSstRtAsymptote.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/NegBinomial.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Normal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Pair.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Poisson.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/SSD.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/SSasymp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/SSasympOff.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/SSasympOrig.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/SSbiexp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/SSfol.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/SSfpl.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/SSgompertz.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/SSlogis.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/SSmicmen.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/SSweibull.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/SignRank.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Smirnov.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/StructTS.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/TDist.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Tukey.html + for i in 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's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/Wilcoxon.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/acf.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/acf2AR.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/add1.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/addmargins.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/aggregate.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/alias.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/anova.glm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/anova.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/anova.lm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/anova.mlm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ansari.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/aov.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/approxfun.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ar.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ar.ols.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/arima.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/arima.sim.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/arima0.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/as.hclust.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/asOneSidedFormula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ave.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/bandwidth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/bartlett.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/binom.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/biplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/biplot.princomp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/birthday.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/box.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/cancor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/case.names.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/checkMFClasses.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/chisq.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/cmdscale.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/coef.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/complete.cases.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/confint.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/constrOptim.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/contrast.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/contrasts.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/convolve.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/cophenetic.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/cor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/cor.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/cov.wt.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/cpgram.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/cutree.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/decompose.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/delete.response.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/dendrapply.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/dendrogram.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/density.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/deriv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/deviance.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/df.residual.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/diffinv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/dist.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/dummy.coef.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ecdf.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/eff.aovlist.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/effects.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/embed.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/expand.model.frame.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/extractAIC.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/factanal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/factor.scope.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/family.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/fft.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/filter.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/fisher.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/fitted.values.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/fivenum.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/fligner.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/formula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/formula.nls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/friedman.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ftable.formula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ftable.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/getInitial.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/glm.control.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/glm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/glm.summaries.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/hclust.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/heatmap.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/identify.hclust.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/influence.measures.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/integrate.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/interaction.plot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/is.empty.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/isoreg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/kernapply.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/kernel.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/kmeans.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/kruskal.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ks.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ksmooth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/lag.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/lag.plot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/line.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/listof.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/lm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/lm.influence.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/lm.summaries.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/lmfit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/loadings.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/loess.control.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/loess.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/logLik.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/loglin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/lowess.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ls.diag.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ls.print.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/lsfit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/mad.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/mahalanobis.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/make.link.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/makepredictcall.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/manova.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/mantelhaen.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/mauchly.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/mcnemar.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/median.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/medpolish.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/model.extract.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/model.frame.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/model.matrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/model.tables.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/monthplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/mood.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/na.action.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/na.contiguous.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/na.fail.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/nafns.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/naprint.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/nextn.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/nlm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/nlminb.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/nls.control.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/nls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/nobs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/numericDeriv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/offset.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/oneway.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/optim.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/optimize.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/order.dendrogram.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/p.adjust.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/pairwise.prop.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/pairwise.t.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/pairwise.table.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/pairwise.wilcox.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/plot.HoltWinters.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/plot.acf.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/plot.density.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/plot.isoreg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/plot.lm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/plot.ppr.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/plot.profile.nls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/plot.spec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/plot.stepfun.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/plot.ts.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/poisson.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/poly.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/power.anova.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/power.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/power.prop.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/power.t.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/pp.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ppoints.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ppr.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/prcomp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/predict.HoltWinters.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/predict.arima.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/predict.glm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/predict.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/predict.lm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/predict.loess.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/predict.nls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/predict.smooth.spline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/preplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/princomp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/print.power.htest.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/print.ts.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/printCoefmat.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/profile.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/profile.nls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/proj.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/prop.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/prop.trend.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/qqnorm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/quade.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/quantile.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/r2dtable.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/rWishart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/read.ftable.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/rect.hclust.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/relevel.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/reorder.dendrogram.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/reorder.factor.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/replications.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/reshape.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/residuals.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/runmed.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/scatter.smooth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/screeplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/sd.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/se.contrast.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/selfStart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/setNames.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/shapiro.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/sigma.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/simulate.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/smooth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/smooth.spline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/smoothEnds.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/sortedXyData.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/spec.ar.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/spec.pgram.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/spec.taper.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/spectrum.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/splinefun.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/start.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/stat.anova.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/stats-defunct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/stats-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/stats-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/step.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/stepfun.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/stl.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/stlmethods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/summary.aov.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/summary.glm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/summary.lm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/summary.manova.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/summary.nls.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/summary.princomp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/supsmu.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/symnum.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/t.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/termplot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/terms.formula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/terms.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/terms.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/time.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/toeplitz.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ts-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ts.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ts.plot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/ts.union.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/tsSmooth.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/tsdiag.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/tsp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/uniroot.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/update.formula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/update.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/var.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/varimax.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/vcov.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/weighted.mean.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/weighted.residuals.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/weights.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/wilcox.test.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/window.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/xtabs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats/html/zC.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/coef-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/confint-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/logLik-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/mle-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/mle.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/plot-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/profile-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/profile.mle-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/show-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/stats4-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/summary-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/summary.mle-class.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/update-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/stats4/html/vcov-methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/Surv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/Surv2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/Surv2data.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/Survmethods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/aareg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/aeqSurv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/aggregate.survfit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/agreg.fit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/aml.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/anova.coxph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/attrassign.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/basehaz.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/bladder.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/blogit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/cch.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/cgd.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/cgd0.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/cipoisson.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/clogit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/cluster.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/colon.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/concordance.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/concordancefit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/cox.zph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/coxph.control.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/coxph.detail.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/coxph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/coxph.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/coxph.wtest.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/coxphms.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/coxsurv.fit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/diabetic.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/dsurvreg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/finegray.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/flchain.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/frailty.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/gbsg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/heart.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/is.ratetable.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/kidney.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/levels.Surv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/lines.survfit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/logLik.coxph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/logan.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/lung.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/mgus.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/mgus2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/model.frame.coxph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/model.matrix.coxph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/myeloid.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/myeloma.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/nafld.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/neardate.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/nsk.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/nwtco.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/ovarian.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/pbc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/pbcseq.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/plot.aareg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/plot.cox.zph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/plot.survfit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/predict.coxph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/predict.survreg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/print.aareg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/print.summary.coxph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/print.summary.survexp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/print.summary.survfit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/print.survfit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/pseudo.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/pspline.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/pyears.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/quantile.survfit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/ratetable.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/ratetableDate.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/rats.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/rats2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/reliability.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/residuals.coxph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/residuals.survfit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/residuals.survreg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/retinopathy.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/rhDNase.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/ridge.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/rotterdam.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/royston.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/rttright.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/solder.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/stanford2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/statefig.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/strata.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/summary.aareg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/summary.coxph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/summary.pyears.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/summary.survexp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/summary.survfit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survSplit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survcheck.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survcondense.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survdiff.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survexp.fit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survexp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survexp.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survexp.us.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survfit.coxph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survfit.formula.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survfit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survfit.matrix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survfit.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survfit0.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survfitcoxph.fit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survival-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survival-internal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survobrien.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survreg.control.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survreg.distributions.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survreg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survreg.object.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/survregDtest.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/tcut.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/tmerge.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/tobin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/transplant.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/udca.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/untangle.specials.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/uspop2.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/vcov.coxph.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/veteran.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/xtfrm.Surv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/yates.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/survival/html/yates_setup.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/TclInterface.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/TkCommands.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/TkWidgetcmds.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/TkWidgets.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/tclServiceMode.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/tcltk-defunct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/tcltk-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/tkProgressBar.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/tkStartGUI.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/tk_choose.dir.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/tk_choose.files.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/tk_messageBox.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/tk_select.list.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tcltk/html/tkpager.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/CRANtools.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/HTMLheader.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/HTMLlinks.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/QC.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/Rcmd.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/Rd2HTML.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/Rd2txt_options.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/RdTextFilter.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/Rdiff.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/Rdindex.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/Rdutils.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/SweaveTeXFilter.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/add_datalist.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/assertCondition.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/bibstyle.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/buildVignette.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/buildVignettes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/charsets.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/checkFF.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/checkMD5sums.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/checkPoFiles.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/checkRd.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/checkRdaFiles.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/checkTnF.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/checkVignettes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/check_packages_in_dir.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/codoc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/compactPDF.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/delimMatch.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/dependsOnPkgs.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/encoded.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/fileutils.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/find_gs_cmd.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/getVignetteInfo.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/loadRdMacros.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/makeLazyLoading.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/make_translations_pkg.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/makevars.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/matchConcordance.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/md5sum.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/package_dependencies.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/package_native_routine_registration_skeleton.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/parseLatex.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/parse_Rd.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/print.via.format.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/pskill.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/psnice.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/read.00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/showNonASCII.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/startDynamicHelp.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/testInstalledPackage.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/texi2dvi.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/toHTML.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/toRd.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/toTitleCase.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/tools-defunct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/tools-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/tools-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/undoc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/updatePACKAGES.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/update_pkg_po.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/userdir.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/vignetteEngine.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/vignetteInfo.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/writePACKAGES.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/tools/html/xgettext.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/BATCH.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/COMPILE.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/DLL.version.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/INSTALL.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/LINK.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/PkgUtils.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/Question.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/REMOVE.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/RHOME.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/RShowDoc.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/RSiteSearch.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/Rconsole.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/Rprof.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/Rprofmem.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/Rscript.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/Rtangle.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/RweaveLatex.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/SHLIB.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/Sweave.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/SweaveSyntConv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/SweaveUtils.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/URLencode.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/View.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/adist.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/alarm.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/apropos.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/aregexec.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/arrangeWindows.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/askYesNo.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/aspell-utils.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/aspell.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/available.packages.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/bibentry.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/browseEnv.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/browseURL.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/browseVignettes.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/bug.report.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/capture.output.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/changedFiles.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/charClass.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/choose.dir.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/choose.files.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/chooseBioCmirror.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/chooseCRANmirror.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/citEntry.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/citation.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/cite.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/clipboard.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/close.socket.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/combn.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/compareVersion.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/contrib.url.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/count.fields.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/create.post.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/data.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/dataentry.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/debugcall.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/debugger.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/demo.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/download.file.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/download.packages.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/edit.data.frame.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/edit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/example.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/file.edit.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/filetest.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/findCRANmirror.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/findLineNum.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/fix.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/flush.console.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/format.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/getAnywhere.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/getFromNamespace.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/getParseData.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/getS3method.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/getWindowsHandle.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/getWindowsHandles.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/glob2rx.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/globalVariables.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/hasName.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/hashtab.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/head.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/help.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/help.request.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/help.search.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/help.start.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/hsearch-utils.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/install.packages.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/installed.packages.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/isS3method.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/isS3stdGen.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/localeToCharset.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/ls_str.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/maintainer.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/make.packages.html.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/make.socket.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/memory.size.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/menu.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/methods.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/mirrorAdmin.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/modifyList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/news.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/nsl.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/object.size.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/package.skeleton.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/packageDescription.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/packageName.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/packageStatus.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/page.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/person.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/personList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/process.events.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/prompt.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/promptData.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/promptPackage.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/rcompgen.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/read.DIF.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/read.fortran.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/read.fwf.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/read.socket.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/read.table.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/readRegistry.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/recover.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/relist.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/remove.packages.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/removeSource.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/roman.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/rtags.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/savehistory.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/select.list.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/sessionInfo.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/setRepositories.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/setWindowTitle.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/shortPathName.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/sourceutils.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/stack.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/str.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/strcapture.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/summaryRprof.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/tar.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/toLatex.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/txtProgressBar.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/type.convert.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/untar.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/unzip.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/update.packages.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/upgrade.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/url.show.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/utils-defunct.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/utils-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/utils-internal.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/utils-package.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/vignette.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/warnErrList.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/winDialog.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/winMenus.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/winProgressBar.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/winextras.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/write.table.html + for i in /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/utils/html/zip.html + chmod +x /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/R/sh/echo.sh + chmod +x /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/BATCH /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/COMPILE /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/INSTALL /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/LINK /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/R /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/REMOVE /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/Rcmd /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/Rd2pdf /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/Rdconv /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/Rdiff /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/Rprof /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/Rscript /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/SHLIB /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/Stangle /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/Sweave /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/build /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/check /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/config /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/exec /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/javareconf /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/libtool /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/mkinstalldirs /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/pager /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/bin/rtags + chmod -x /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/library/mgcv/CITATION /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/doc/R/CAPABILITIES + '[' '!' -d /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R/include ']' ~/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R ~/build/BUILD/R-rc + pushd /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/R + ln -s ../../include/R include + popd ~/build/BUILD/R-rc + for i in tex/latex bibtex/bib bibtex/bst + mkdir -p /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/texlive/texmf-dist/tex/latex + cd /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.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-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/texlive/texmf-dist/bibtex/bib + cd /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.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-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/texlive/texmf-dist/bibtex/bst + cd /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/texlive/texmf-dist/bibtex/bst + ln -s /usr/share/R/texmf/bibtex/bst R + /usr/lib/rpm/find-debuginfo.sh -j2 --strict-build-id -m -i 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extracting debug info from /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib64/libRmath.so original debug info size: 25132kB, size after compression: 23660kB /usr/lib/rpm/sepdebugcrcfix: Updated 33 CRC32s, 0 CRC32s did match. 20435 blocks + /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/redhat/brp-python-bytecompile '' 1 0 + /usr/lib/rpm/brp-python-hardlink + /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 Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.HblXtH + umask 022 + cd /builddir/build/BUILD + cd R-rc + ulimit -s 16384 + TZ=Europe/Paris + make check make[1]: Entering directory '/builddir/build/BUILD/R-rc/tests' make[2]: Entering directory '/builddir/build/BUILD/R-rc/tests' make[3]: Entering directory '/builddir/build/BUILD/R-rc/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' ... NOTE 7434,7435c7434,7435 < Fisher's Exact Test for Count Data hybrid using asym.chisq. iff < (exp=5, perc=80, Emin=1) --- > Fisher's Exact Test for Count Data hybrid using asym.chisq. iff (exp=5, > perc=80, Emin=1) 14034,14035c14034 < 4-sample test for equality of proportions without continuity < correction --- > 4-sample test for equality of proportions without continuity correction 14064,14065c14063 < 4-sample test for equality of proportions without continuity < correction --- > 4-sample test for equality of proportions without continuity correction 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-rc/tests/Examples' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/tests' make[2]: Entering directory '/builddir/build/BUILD/R-rc/tests' running strict specific tests make[3]: Entering directory '/builddir/build/BUILD/R-rc/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-rc/tests' running sloppy specific tests make[3]: Entering directory '/builddir/build/BUILD/R-rc/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-rc/tests' make[3]: Entering directory '/builddir/build/BUILD/R-rc/tests' checking Sys.timezone ... make[4]: Entering directory '/builddir/build/BUILD/R-rc/tests' running code in 'timezone.R' ... OK make[4]: Leaving directory '/builddir/build/BUILD/R-rc/tests' make[3]: Leaving directory '/builddir/build/BUILD/R-rc/tests' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/tests' make[2]: Entering directory '/builddir/build/BUILD/R-rc/tests' running regression tests ... make[3]: Entering directory '/builddir/build/BUILD/R-rc/tests' running code in 'array-subset.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-examples.R' ... OK running code in 'reg-BLAS.R' ... OK make[3]: Leaving directory '/builddir/build/BUILD/R-rc/tests' make[3]: Entering directory '/builddir/build/BUILD/R-rc/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' ... FAILED running code in 'reg-S4.R' ... OK comparing 'reg-S4.Rout' to './reg-S4.Rout.save' ... OK make[3]: Leaving directory '/builddir/build/BUILD/R-rc/tests' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/tests' make[2]: Entering directory '/builddir/build/BUILD/R-rc/tests' running tests of Internet functions make[3]: Entering directory '/builddir/build/BUILD/R-rc/tests' running code in 'internet.R' ... OK comparing 'internet.Rout' to './internet.Rout.save' ...8,10c8,146 < Warning message: < In nsl("cran.r-project.org") : < nsl() was unable to resolve host 'cran.r-project.org' --- > > > > # test do_download (and "record" #{packages}): > > ap <- available.packages(contrib.url("http://cran.r-project.org")) > > ## IGNORE_RDIFF_END > > > > # test url connections on http > > zz <- url("http://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 > > > > read.table("http://www.stats.ox.ac.uk/pub/datasets/csb/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 > > OK make[3]: Leaving directory '/builddir/build/BUILD/R-rc/tests' make[2]: Leaving directory '/builddir/build/BUILD/R-rc/tests' make[1]: Leaving directory '/builddir/build/BUILD/R-rc/tests' + RPM_EC=0 ++ jobs -p + exit 0 Processing files: R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 Processing files: R-core-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 warning: Duplicate build-ids /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/bin/Rscript and /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.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) = 4.2 R(ABI) = 4.3 R(KernSmooth) = 2.23.20 R(MASS) = 7.3.58.4 R(Matrix) = 1.5.4 R(base) = 4.3.0 R(boot) = 1.3.28.1 R(class) = 7.3.21 R(cluster) = 2.1.4 R(codetools) = 0.2.19 R(compiler) = 4.3.0 R(datasets) = 4.3.0 R(foreign) = 0.8.84 R(grDevices) = 4.3.0 R(graphics) = 4.3.0 R(grid) = 4.3.0 R(lattice) = 0.21.8 R(methods) = 4.3.0 R(mgcv) = 1.8.42 R(nlme) = 3.1.162 R(nnet) = 7.3.18 R(parallel) = 4.3.0 R(rpart) = 4.1.19 R(spatial) = 7.3.16 R(splines) = 4.3.0 R(stats) = 4.3.0 R(stats4) = 4.3.0 R(survival) = 3.5.5 R(tcltk) = 4.3.0 R(tools) = 4.3.0 R(translations) = 4.3.0 R(utils) = 4.3.0 R-KernSmooth = 2.23.20 R-MASS = 7.3.58.4 R-Matrix = 1.5.4 R-base = 4.3.0 R-boot = 1.3.28.1 R-class = 7.3.21 R-cluster = 2.1.4 R-codetools = 0.2.19 R-compiler = 4.3.0 R-core = 4.3.0-0.el9~bootstrap.r84280.copr5806616 R-core(x86-64) = 4.3.0-0.el9~bootstrap.r84280.copr5806616 R-datasets = 4.3.0 R-foreign = 0.8.84 R-grDevices = 4.3.0 R-graphics = 4.3.0 R-grid = 4.3.0 R-lattice = 0.21.8 R-methods = 4.3.0 R-mgcv = 1.8.42 R-nlme = 3.1.162 R-nnet = 7.3.18 R-parallel = 4.3.0 R-rpart = 4.1.19 R-spatial = 7.3.16 R-splines = 4.3.0 R-stats = 4.3.0 R-stats4 = 4.3.0 R-survival = 3.5.5 R-tcltk = 4.3.0 R-tools = 4.3.0 R-translations = 4.3.0 R-utils = 4.3.0 config(R-core) = 4.3.0-0.el9~bootstrap.r84280.copr5806616 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_2.3.4)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(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) libcairo.so.2()(64bit) libcurl.so.4()(64bit) libflexiblas.so.3()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libgcc_s.so.1(GCC_4.0.0)(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.67()(64bit) libicuuc.so.67()(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) 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.5()(64bit) libtiff.so.5(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) rtld(GNU_HASH) Obsoletes: R-Matrix < 0.999375-7 Processing files: R-core-devel-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 Provides: R-Matrix-devel = 1.5.4 R-core-devel = 4.3.0-0.el9~bootstrap.r84280.copr5806616 R-core-devel(x86-64) = 4.3.0-0.el9~bootstrap.r84280.copr5806616 pkgconfig(libR) = 4.3.0 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: tex(latex) texinfo-tex Processing files: R-devel-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 Processing files: R-java-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 Processing files: R-java-devel-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 Processing files: libRmath-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.dkoPKh + umask 022 + cd /builddir/build/BUILD + cd R-rc + LICENSEDIR=/builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/licenses/libRmath + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/licenses/libRmath + cp -pr doc/COPYING /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/share/licenses/libRmath + RPM_EC=0 ++ jobs -p + exit 0 Provides: libRmath = 4.3.0-0.el9~bootstrap.r84280.copr5806616 libRmath(x86-64) = 4.3.0-0.el9~bootstrap.r84280.copr5806616 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) 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) rtld(GNU_HASH) Processing files: libRmath-devel-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 Provides: libRmath-devel = 4.3.0-0.el9~bootstrap.r84280.copr5806616 libRmath-devel(x86-64) = 4.3.0-0.el9~bootstrap.r84280.copr5806616 pkgconfig(libRmath) = 4.3.0 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-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 Provides: libRmath-static = 4.3.0-0.el9~bootstrap.r84280.copr5806616 libRmath-static(x86-64) = 4.3.0-0.el9~bootstrap.r84280.copr5806616 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: R-debugsource-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 Provides: R-debugsource = 4.3.0-0.el9~bootstrap.r84280.copr5806616 R-debugsource(x86-64) = 4.3.0-0.el9~bootstrap.r84280.copr5806616 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: R-debuginfo-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 Provides: R-debuginfo = 4.3.0-0.el9~bootstrap.r84280.copr5806616 R-debuginfo(x86-64) = 4.3.0-0.el9~bootstrap.r84280.copr5806616 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: R-debugsource(x86-64) = 4.3.0-0.el9~bootstrap.r84280.copr5806616 Processing files: R-core-debuginfo-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 warning: Duplicate build-ids /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib/debug/usr/bin/Rscript-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.debug and /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64/usr/lib/debug/usr/lib64/R/bin/Rscript-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.debug Provides: R-core-debuginfo = 4.3.0-0.el9~bootstrap.r84280.copr5806616 R-core-debuginfo(x86-64) = 4.3.0-0.el9~bootstrap.r84280.copr5806616 debuginfo(build-id) = 0cb96e50ced901e1e60528a95c069ca99a7b61ec debuginfo(build-id) = 18a233e104fff2ca71de43922ec023653d29538c debuginfo(build-id) = 18ae55de81461325becd0260f6f5a7c43ab33ef9 debuginfo(build-id) = 18d1bbd2c526a27119f0a1454ee99b55031dc17b debuginfo(build-id) = 252b3aee0be1f5859947d025247e57c79aa58c09 debuginfo(build-id) = 316c7d088a64f871397b587cbaa2262d85c6d4c4 debuginfo(build-id) = 362146919cabe6d035bd5efa6e2e1ad36ef2f4ed debuginfo(build-id) = 3d62fa64f61492ee2f3cc80d8dc94f17e36690ee debuginfo(build-id) = 4a34ca16afbd10c7c7e38f4a1579075588a2ef44 debuginfo(build-id) = 5337616bdcdd0493d26a3d60d229dcf4ce00d412 debuginfo(build-id) = 5cbdd377e10e2966ce43fb33d8b9fa7c215344d2 debuginfo(build-id) = 60fcf3d2d297a1bc69ff6233291b6c3b7ada1efe debuginfo(build-id) = 636bc46e6fa114642fa5cc00d373a1044d822667 debuginfo(build-id) = 789ffa1e37940f81aafe6fdff31757caec74a467 debuginfo(build-id) = 7cd19039ba76b2d5fd0d7004c38baedca0fdcb8b debuginfo(build-id) = 7e35d2decd005fdac06de38a0eee1f8e1e04f4df debuginfo(build-id) = 8be9a863764952c268e0f03dff7396021809d33f debuginfo(build-id) = 98135670344f1cf88cc33a923e5d11ff8cedce5b debuginfo(build-id) = 9fe308e42bc4f10c881ce4b796ecc8db540590da debuginfo(build-id) = a432273b6865b8c38acd11694022223be02a6d72 debuginfo(build-id) = a979d53d85c423deec9538388ae5cf7084a08e1c debuginfo(build-id) = b6609878a6f80132787afe3bdd97b61ea25ab751 debuginfo(build-id) = b7aa3a0f133d0bf7be040670709c9abb59f57f08 debuginfo(build-id) = bdba58e8de5baed10d2000be07508f15992e03d0 debuginfo(build-id) = bf9499ca0c4ee690de7de56e0e86c8acf66420f9 debuginfo(build-id) = c6094b4d183dc565b0491014a10b3a120fde8051 debuginfo(build-id) = cc8a85ba0940ce1f1d7b93f155f2361874c78173 debuginfo(build-id) = e109c82d80b6a3c790c9ec700a288ce039182d33 debuginfo(build-id) = e2a791c13a4d5c55898f490b92231e5460c51b43 debuginfo(build-id) = e6e94aaf7cab101b30a683c6268e75fe2caafe22 debuginfo(build-id) = ff64694cfdc4a94abbecf797a117134eb605d93f debuginfo(build-id) = nilnil Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: R-debugsource(x86-64) = 4.3.0-0.el9~bootstrap.r84280.copr5806616 Processing files: libRmath-debuginfo-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 Provides: debuginfo(build-id) = b5d3bbc05536126164c0820dff40907cc9c82071 libRmath-debuginfo = 4.3.0-0.el9~bootstrap.r84280.copr5806616 libRmath-debuginfo(x86-64) = 4.3.0-0.el9~bootstrap.r84280.copr5806616 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: R-debugsource(x86-64) = 4.3.0-0.el9~bootstrap.r84280.copr5806616 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 Wrote: /builddir/build/RPMS/R-core-debuginfo-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.rpm Wrote: /builddir/build/RPMS/R-debugsource-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.rpm Wrote: /builddir/build/RPMS/libRmath-static-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.rpm Wrote: /builddir/build/RPMS/libRmath-debuginfo-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.rpm Wrote: /builddir/build/RPMS/R-core-devel-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.rpm Wrote: /builddir/build/RPMS/libRmath-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.rpm Wrote: /builddir/build/RPMS/R-debuginfo-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.rpm Wrote: /builddir/build/RPMS/libRmath-devel-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.rpm Wrote: /builddir/build/RPMS/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.rpm Wrote: /builddir/build/RPMS/R-devel-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.rpm Wrote: /builddir/build/RPMS/R-java-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.rpm Wrote: /builddir/build/RPMS/R-java-devel-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.rpm Wrote: /builddir/build/RPMS/R-core-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.lUjPg2 + umask 022 + cd /builddir/build/BUILD + cd R-rc + /usr/bin/rm -rf /builddir/build/BUILDROOT/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Finish: rpmbuild R-4.3.0-0.el9~bootstrap.r84280.copr5806616.src.rpm Finish: build phase for R-4.3.0-0.el9~bootstrap.r84280.copr5806616.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/rhel+epel-9-x86_64-1681932083.179075/root/var/log/dnf.rpm.log /var/lib/mock/rhel+epel-9-x86_64-1681932083.179075/root/var/log/dnf.librepo.log /var/lib/mock/rhel+epel-9-x86_64-1681932083.179075/root/var/log/dnf.log INFO: Done(/var/lib/copr-rpmbuild/results/R-4.3.0-0.el9~bootstrap.r84280.copr5806616.src.rpm) Config(child) 18 minutes 51 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