Warning: Permanently added '2620:52:3:1:dead:beef:cafe:c14b' (ED25519) to the list of known hosts.

You can reproduce this build on your computer by running:

  sudo dnf install copr-rpmbuild
  /usr/bin/copr-rpmbuild --verbose --drop-resultdir --task-url https://copr.fedorainfracloud.org/backend/get-build-task/8192634-fedora-39-x86_64 --chroot fedora-39-x86_64


Version: 1.1
PID: 13711
Logging PID: 13712
Task:
{'allow_user_ssh': False,
 'appstream': False,
 'background': False,
 'bootstrap': 'off',
 'build_id': 8192634,
 'buildroot_pkgs': [],
 'chroot': 'fedora-39-x86_64',
 'enable_net': False,
 'fedora_review': False,
 'git_hash': 'dd49ee096a7373026203e6c61e46e07bb35028cd',
 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/iucar/cran/R-CRAN-rxode2',
 'isolation': 'default',
 'memory_reqs': 2048,
 'package_name': 'R-CRAN-rxode2',
 'package_version': '3.0.2-1.copr8192634',
 'project_dirname': 'cran',
 'project_name': 'cran',
 'project_owner': 'iucar',
 'repo_priority': None,
 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/iucar/cran/fedora-39-x86_64/',
            'id': 'copr_base',
            'name': 'Copr repository',
            'priority': None}],
 'sandbox': 'iucar/cran--iucar',
 'source_json': {},
 'source_type': None,
 'ssh_public_keys': None,
 'storage': None,
 'submitter': 'iucar',
 'tags': [],
 'task_id': '8192634-fedora-39-x86_64',
 'timeout': 18000,
 'uses_devel_repo': False,
 'with_opts': [],
 'without_opts': []}

Running: git clone https://copr-dist-git.fedorainfracloud.org/git/iucar/cran/R-CRAN-rxode2 /var/lib/copr-rpmbuild/workspace/workdir-_yimcfvi/R-CRAN-rxode2 --depth 500 --no-single-branch --recursive

cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/iucar/cran/R-CRAN-rxode2', '/var/lib/copr-rpmbuild/workspace/workdir-_yimcfvi/R-CRAN-rxode2', '--depth', '500', '--no-single-branch', '--recursive']
cwd: .
rc: 0
stdout: 
stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-_yimcfvi/R-CRAN-rxode2'...

Running: git checkout dd49ee096a7373026203e6c61e46e07bb35028cd --

cmd: ['git', 'checkout', 'dd49ee096a7373026203e6c61e46e07bb35028cd', '--']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-_yimcfvi/R-CRAN-rxode2
rc: 0
stdout: 
stderr: Note: switching to 'dd49ee096a7373026203e6c61e46e07bb35028cd'.

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 <new-branch-name>

Or undo this operation with:

  git switch -

Turn off this advice by setting config variable advice.detachedHead to false

HEAD is now at dd49ee0 automatic import of R-CRAN-rxode2

Running: dist-git-client sources

/usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated
cmd: ['dist-git-client', 'sources']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-_yimcfvi/R-CRAN-rxode2
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 rxode2_3.0.2.tar.gz
INFO: Reading stdout from command: curl --help all
INFO: Calling: curl -H Pragma: -o rxode2_3.0.2.tar.gz --location --connect-timeout 60 --retry 3 --retry-delay 10 --remote-time --show-error --fail --retry-all-errors https://copr-dist-git.fedorainfracloud.org/repo/pkgs/iucar/cran/R-CRAN-rxode2/rxode2_3.0.2.tar.gz/md5/eccc205418f16be42f7ebae784e54bc9/rxode2_3.0.2.tar.gz
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100 3955k  100 3955k    0     0  30.9M      0 --:--:-- --:--:-- --:--:-- 31.1M
INFO: Reading stdout from command: md5sum rxode2_3.0.2.tar.gz

Running (timeout=18000): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-_yimcfvi/R-CRAN-rxode2/R-CRAN-rxode2.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-_yimcfvi/R-CRAN-rxode2 --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1730339473.970307 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
INFO: mock.py version 5.9 starting (python version = 3.12.1, NVR = mock-5.9-1.fc39), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-_yimcfvi/R-CRAN-rxode2/R-CRAN-rxode2.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-_yimcfvi/R-CRAN-rxode2 --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1730339473.970307 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
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-_yimcfvi/R-CRAN-rxode2/R-CRAN-rxode2.spec)  Config(fedora-39-x86_64)
Start: clean chroot
Finish: clean chroot
Mock Version: 5.9
INFO: Mock Version: 5.9
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-39-x86_64-1730339473.970307/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start: cleaning package manager metadata
Finish: cleaning package manager metadata
INFO: enabled HW Info plugin
INFO: Package manager dnf4 detected and used (fallback)
INFO: Buildroot is handled by package management from host and used with --installroot:
  rpm-4.19.1.1-1.fc39.x86_64
  rpm-sequoia-1.6.0-1.fc39.x86_64
  python3-dnf-4.21.1-1.fc39.noarch
  python3-dnf-plugins-core-4.9.0-1.fc39.noarch
  yum-4.21.1-1.fc39.noarch
  dnf5-5.1.17-2.fc39.x86_64
  dnf5-plugins-5.1.17-2.fc39.x86_64
Start: installing minimal buildroot with dnf
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                                  22 kB/s | 1.5 kB     00:00    
Copr repository                                  43 MB/s |  27 MB     00:00    
fedora                                          1.1 MB/s |  31 kB     00:00    
updates                                         692 kB/s |  27 kB     00:00    
Dependencies resolved.
================================================================================
 Package                       Arch   Version                     Repo     Size
================================================================================
Installing group/module packages:
 bash                          x86_64 5.2.26-1.fc39               updates 1.8 M
 bzip2                         x86_64 1.0.8-16.fc39               fedora   52 k
 coreutils                     x86_64 9.3-7.fc39                  updates 1.1 M
 cpio                          x86_64 2.14-4.fc39                 fedora  279 k
 diffutils                     x86_64 3.10-3.fc39                 fedora  398 k
 fedora-release-common         noarch 39-36                       updates  19 k
 findutils                     x86_64 1:4.9.0-6.fc39              updates 490 k
 gawk                          x86_64 5.2.2-2.fc39                fedora  1.1 M
 glibc-minimal-langpack        x86_64 2.38-19.fc39                updates  65 k
 grep                          x86_64 3.11-3.fc39                 fedora  298 k
 gzip                          x86_64 1.12-6.fc39                 fedora  166 k
 info                          x86_64 7.0.3-3.fc39                fedora  182 k
 patch                         x86_64 2.7.6-22.fc39               fedora  125 k
 redhat-rpm-config             noarch 266-1.fc39                  updates  78 k
 rpm-build                     x86_64 4.19.1.1-1.fc39             updates  78 k
 sed                           x86_64 4.8-14.fc39                 fedora  306 k
 shadow-utils                  x86_64 2:4.14.0-2.fc39             updates 1.3 M
 tar                           x86_64 2:1.35-2.fc39               fedora  864 k
 unzip                         x86_64 6.0-62.fc39                 fedora  184 k
 util-linux                    x86_64 2.39.4-1.fc39               updates 1.2 M
 which                         x86_64 2.21-40.fc39                fedora   42 k
 xz                            x86_64 5.4.4-1.fc39                fedora  556 k
Installing dependencies:
 alternatives                  x86_64 1.26-1.fc39                 updates  39 k
 ansible-srpm-macros           noarch 1-12.fc39                   updates  21 k
 audit-libs                    x86_64 3.1.5-1.fc39                updates 123 k
 authselect                    x86_64 1.4.3-1.fc39                fedora  149 k
 authselect-libs               x86_64 1.4.3-1.fc39                fedora  249 k
 basesystem                    noarch 11-18.fc39                  fedora  7.2 k
 binutils                      x86_64 2.40-14.fc39                updates 5.6 M
 binutils-gold                 x86_64 2.40-14.fc39                updates 795 k
 bzip2-libs                    x86_64 1.0.8-16.fc39               fedora   41 k
 ca-certificates               noarch 2024.2.69_v8.0.401-1.0.fc39 updates 871 k
 coreutils-common              x86_64 9.3-7.fc39                  updates 2.1 M
 cracklib                      x86_64 2.9.11-2.fc39               fedora   94 k
 crypto-policies               noarch 20231204-1.git1e3a2e4.fc39  updates 100 k
 curl                          x86_64 8.2.1-5.fc39                updates 344 k
 cyrus-sasl-lib                x86_64 2.1.28-11.fc39              fedora  793 k
 debugedit                     x86_64 5.0-12.fc39                 updates  79 k
 dwz                           x86_64 0.15-3.fc39                 fedora  134 k
 ed                            x86_64 1.19-4.fc39                 fedora   79 k
 efi-srpm-macros               noarch 5-9.fc39                    fedora   22 k
 elfutils                      x86_64 0.191-2.fc39                updates 559 k
 elfutils-debuginfod-client    x86_64 0.191-2.fc39                updates  38 k
 elfutils-default-yama-scope   noarch 0.191-2.fc39                updates  13 k
 elfutils-libelf               x86_64 0.191-2.fc39                updates 209 k
 elfutils-libs                 x86_64 0.191-2.fc39                updates 263 k
 fedora-gpg-keys               noarch 39-2                        updates 130 k
 fedora-release                noarch 39-36                       updates 8.6 k
 fedora-release-identity-basic noarch 39-36                       updates 9.4 k
 fedora-repos                  noarch 39-2                        updates 9.3 k
 file                          x86_64 5.44-5.fc39                 fedora   49 k
 file-libs                     x86_64 5.44-5.fc39                 fedora  729 k
 filesystem                    x86_64 3.18-6.fc39                 fedora  1.1 M
 fonts-srpm-macros             noarch 1:2.0.5-12.fc39             fedora   26 k
 forge-srpm-macros             noarch 0.3.1-1.fc39                updates  19 k
 fpc-srpm-macros               noarch 1.3-8.fc39                  fedora  7.4 k
 gdb-minimal                   x86_64 15.1-1.fc39                 updates 4.3 M
 gdbm-libs                     x86_64 1:1.23-4.fc39               fedora   56 k
 ghc-srpm-macros               noarch 1.6.1-2.fc39                fedora  7.8 k
 glibc                         x86_64 2.38-19.fc39                updates 2.1 M
 glibc-common                  x86_64 2.38-19.fc39                updates 344 k
 glibc-gconv-extra             x86_64 2.38-19.fc39                updates 1.6 M
 gmp                           x86_64 1:6.2.1-5.fc39              fedora  313 k
 gnat-srpm-macros              noarch 6-3.fc39                    fedora  8.8 k
 go-srpm-macros                noarch 3.5.0-1.fc39                updates  28 k
 jansson                       x86_64 2.13.1-7.fc39               fedora   44 k
 kernel-srpm-macros            noarch 1.0-20.fc39                 fedora   10 k
 keyutils-libs                 x86_64 1.6.3-1.fc39                updates  31 k
 krb5-libs                     x86_64 1.21.3-1.fc39               updates 764 k
 libacl                        x86_64 2.3.1-9.fc39                updates  23 k
 libarchive                    x86_64 3.7.1-2.fc39                updates 407 k
 libattr                       x86_64 2.5.1-8.fc39                fedora   18 k
 libblkid                      x86_64 2.39.4-1.fc39               updates 116 k
 libbrotli                     x86_64 1.1.0-1.fc39                fedora  336 k
 libcap                        x86_64 2.48-9.fc39                 updates  68 k
 libcap-ng                     x86_64 0.8.3-8.fc39                fedora   32 k
 libcom_err                    x86_64 1.47.0-2.fc39               fedora   26 k
 libcurl                       x86_64 8.2.1-5.fc39                updates 322 k
 libdb                         x86_64 5.3.28-56.fc39              fedora  760 k
 libeconf                      x86_64 0.5.2-2.fc39                updates  30 k
 libevent                      x86_64 2.1.12-9.fc39               fedora  258 k
 libfdisk                      x86_64 2.39.4-1.fc39               updates 161 k
 libffi                        x86_64 3.4.4-4.fc39                fedora   40 k
 libgcc                        x86_64 13.3.1-3.fc39               updates 120 k
 libgomp                       x86_64 13.3.1-3.fc39               updates 329 k
 libidn2                       x86_64 2.3.7-1.fc39                updates 119 k
 libmount                      x86_64 2.39.4-1.fc39               updates 154 k
 libnghttp2                    x86_64 1.55.1-5.fc39               updates  75 k
 libnsl2                       x86_64 2.0.0-6.fc39                fedora   30 k
 libpkgconf                    x86_64 1.9.5-2.fc39                fedora   38 k
 libpsl                        x86_64 0.21.2-4.fc39               fedora   63 k
 libpwquality                  x86_64 1.4.5-6.fc39                fedora  120 k
 libselinux                    x86_64 3.5-5.fc39                  fedora   87 k
 libsemanage                   x86_64 3.5-4.fc39                  fedora  120 k
 libsepol                      x86_64 3.5-2.fc39                  fedora  324 k
 libsigsegv                    x86_64 2.14-5.fc39                 fedora   27 k
 libsmartcols                  x86_64 2.39.4-1.fc39               updates  67 k
 libssh                        x86_64 0.10.6-2.fc39               updates 212 k
 libssh-config                 noarch 0.10.6-2.fc39               updates 9.0 k
 libstdc++                     x86_64 13.3.1-3.fc39               updates 870 k
 libtasn1                      x86_64 4.19.0-3.fc39               fedora   74 k
 libtirpc                      x86_64 1.3.5-0.fc39                updates  94 k
 libtool-ltdl                  x86_64 2.4.7-7.fc39                fedora   36 k
 libunistring                  x86_64 1.1-5.fc39                  fedora  543 k
 libutempter                   x86_64 1.2.1-10.fc39               fedora   26 k
 libuuid                       x86_64 2.39.4-1.fc39               updates  28 k
 libverto                      x86_64 0.3.2-6.fc39                fedora   20 k
 libxcrypt                     x86_64 4.4.36-2.fc39               fedora  119 k
 libxml2                       x86_64 2.10.4-3.fc39               fedora  701 k
 libzstd                       x86_64 1.5.6-1.fc39                updates 312 k
 lua-libs                      x86_64 5.4.6-3.fc39                fedora  133 k
 lua-srpm-macros               noarch 1-13.fc39                   updates 8.7 k
 lz4-libs                      x86_64 1.9.4-4.fc39                fedora   67 k
 mpfr                          x86_64 4.2.0-3.fc39                fedora  344 k
 ncurses-base                  noarch 6.4-7.20230520.fc39.1       updates  88 k
 ncurses-libs                  x86_64 6.4-7.20230520.fc39.1       updates 336 k
 ocaml-srpm-macros             noarch 8-2.fc39                    fedora   14 k
 openblas-srpm-macros          noarch 2-14.fc39                   fedora  7.5 k
 openldap                      x86_64 2.6.7-1.fc39                updates 254 k
 openssl-libs                  x86_64 1:3.1.4-4.fc39              updates 2.2 M
 p11-kit                       x86_64 0.25.5-1.fc39               updates 515 k
 p11-kit-trust                 x86_64 0.25.5-1.fc39               updates 138 k
 package-notes-srpm-macros     noarch 0.5-9.fc39                  fedora   11 k
 pam                           x86_64 1.5.3-3.fc39                updates 542 k
 pam-libs                      x86_64 1.5.3-3.fc39                updates  56 k
 pcre2                         x86_64 10.42-1.fc39.2              fedora  233 k
 pcre2-syntax                  noarch 10.42-1.fc39.2              fedora  143 k
 perl-srpm-macros              noarch 1-51.fc39                   fedora  8.0 k
 pkgconf                       x86_64 1.9.5-2.fc39                fedora   42 k
 pkgconf-m4                    noarch 1.9.5-2.fc39                fedora   14 k
 pkgconf-pkg-config            x86_64 1.9.5-2.fc39                fedora  9.6 k
 popt                          x86_64 1.19-3.fc39                 fedora   66 k
 publicsuffix-list-dafsa       noarch 20240107-1.fc39             updates  58 k
 pyproject-srpm-macros         noarch 1.15.1-1.fc39               updates  13 k
 python-srpm-macros            noarch 3.12-8.fc39                 updates  23 k
 qt5-srpm-macros               noarch 5.15.14-2.fc39              updates 8.9 k
 qt6-srpm-macros               noarch 6.6.2-1.fc39                updates 8.9 k
 readline                      x86_64 8.2-6.fc39                  updates 212 k
 rpm                           x86_64 4.19.1.1-1.fc39             updates 538 k
 rpm-build-libs                x86_64 4.19.1.1-1.fc39             updates  95 k
 rpm-libs                      x86_64 4.19.1.1-1.fc39             updates 312 k
 rpm-sequoia                   x86_64 1.7.0-1.fc39                updates 904 k
 rpmautospec-rpm-macros        noarch 0.7.2-1.fc39                updates  10 k
 rust-srpm-macros              noarch 26.3-1.fc39                 updates  13 k
 setup                         noarch 2.14.4-1.fc39               fedora  154 k
 sqlite-libs                   x86_64 3.42.0-7.fc39               fedora  678 k
 systemd-libs                  x86_64 254.19-1.fc39               updates 681 k
 util-linux-core               x86_64 2.39.4-1.fc39               updates 507 k
 xxhash-libs                   x86_64 0.8.2-4.fc39                updates  37 k
 xz-libs                       x86_64 5.4.4-1.fc39                fedora  108 k
 zip                           x86_64 3.0-39.fc39                 fedora  266 k
 zlib                          x86_64 1.2.13-4.fc39               fedora   94 k
 zstd                          x86_64 1.5.6-1.fc39                updates 479 k
Installing Groups:
 Buildsystem building group                                                    

Transaction Summary
================================================================================
Install  153 Packages

Total size: 52 M
Installed size: 179 M
Downloading Packages:
[SKIPPED] authselect-1.4.3-1.fc39.x86_64.rpm: Already downloaded               
[SKIPPED] authselect-libs-1.4.3-1.fc39.x86_64.rpm: Already downloaded          
[SKIPPED] basesystem-11-18.fc39.noarch.rpm: Already downloaded                 
[SKIPPED] bzip2-1.0.8-16.fc39.x86_64.rpm: Already downloaded                   
[SKIPPED] bzip2-libs-1.0.8-16.fc39.x86_64.rpm: Already downloaded              
[SKIPPED] cpio-2.14-4.fc39.x86_64.rpm: Already downloaded                      
[SKIPPED] cracklib-2.9.11-2.fc39.x86_64.rpm: Already downloaded                
[SKIPPED] cyrus-sasl-lib-2.1.28-11.fc39.x86_64.rpm: Already downloaded         
[SKIPPED] diffutils-3.10-3.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] dwz-0.15-3.fc39.x86_64.rpm: Already downloaded                       
[SKIPPED] ed-1.19-4.fc39.x86_64.rpm: Already downloaded                        
[SKIPPED] efi-srpm-macros-5-9.fc39.noarch.rpm: Already downloaded              
[SKIPPED] file-5.44-5.fc39.x86_64.rpm: Already downloaded                      
[SKIPPED] file-libs-5.44-5.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] filesystem-3.18-6.fc39.x86_64.rpm: Already downloaded                
[SKIPPED] fonts-srpm-macros-2.0.5-12.fc39.noarch.rpm: Already downloaded       
[SKIPPED] fpc-srpm-macros-1.3-8.fc39.noarch.rpm: Already downloaded            
[SKIPPED] gawk-5.2.2-2.fc39.x86_64.rpm: Already downloaded                     
[SKIPPED] gdbm-libs-1.23-4.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] ghc-srpm-macros-1.6.1-2.fc39.noarch.rpm: Already downloaded          
[SKIPPED] gmp-6.2.1-5.fc39.x86_64.rpm: Already downloaded                      
[SKIPPED] gnat-srpm-macros-6-3.fc39.noarch.rpm: Already downloaded             
[SKIPPED] grep-3.11-3.fc39.x86_64.rpm: Already downloaded                      
[SKIPPED] gzip-1.12-6.fc39.x86_64.rpm: Already downloaded                      
[SKIPPED] info-7.0.3-3.fc39.x86_64.rpm: Already downloaded                     
[SKIPPED] jansson-2.13.1-7.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] kernel-srpm-macros-1.0-20.fc39.noarch.rpm: Already downloaded        
[SKIPPED] libattr-2.5.1-8.fc39.x86_64.rpm: Already downloaded                  
[SKIPPED] libbrotli-1.1.0-1.fc39.x86_64.rpm: Already downloaded                
[SKIPPED] libcap-ng-0.8.3-8.fc39.x86_64.rpm: Already downloaded                
[SKIPPED] libcom_err-1.47.0-2.fc39.x86_64.rpm: Already downloaded              
[SKIPPED] libdb-5.3.28-56.fc39.x86_64.rpm: Already downloaded                  
[SKIPPED] libevent-2.1.12-9.fc39.x86_64.rpm: Already downloaded                
[SKIPPED] libffi-3.4.4-4.fc39.x86_64.rpm: Already downloaded                   
[SKIPPED] libnsl2-2.0.0-6.fc39.x86_64.rpm: Already downloaded                  
[SKIPPED] libpkgconf-1.9.5-2.fc39.x86_64.rpm: Already downloaded               
[SKIPPED] libpsl-0.21.2-4.fc39.x86_64.rpm: Already downloaded                  
[SKIPPED] libpwquality-1.4.5-6.fc39.x86_64.rpm: Already downloaded             
[SKIPPED] libselinux-3.5-5.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] libsemanage-3.5-4.fc39.x86_64.rpm: Already downloaded                
[SKIPPED] libsepol-3.5-2.fc39.x86_64.rpm: Already downloaded                   
[SKIPPED] libsigsegv-2.14-5.fc39.x86_64.rpm: Already downloaded                
[SKIPPED] libtasn1-4.19.0-3.fc39.x86_64.rpm: Already downloaded                
[SKIPPED] libtool-ltdl-2.4.7-7.fc39.x86_64.rpm: Already downloaded             
[SKIPPED] libunistring-1.1-5.fc39.x86_64.rpm: Already downloaded               
[SKIPPED] libutempter-1.2.1-10.fc39.x86_64.rpm: Already downloaded             
[SKIPPED] libverto-0.3.2-6.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] libxcrypt-4.4.36-2.fc39.x86_64.rpm: Already downloaded               
[SKIPPED] libxml2-2.10.4-3.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] lua-libs-5.4.6-3.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] lz4-libs-1.9.4-4.fc39.x86_64.rpm: Already downloaded                 
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fedora                                          1.6 MB/s | 1.6 kB     00:00    
Importing GPG key 0x18B8E74C:
 Userid     : "Fedora (39) <fedora-39-primary@fedoraproject.org>"
 Fingerprint: E8F2 3996 F232 1864 0CB4 4CBE 75CF 5AC4 18B8 E74C
 From       : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-39-primary
Key imported successfully
Running transaction check
Transaction check succeeded.
Running transaction test
Transaction test succeeded.
Running transaction
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warning: /etc/hosts created as /etc/hosts.rpmnew

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  Installing       : openblas-srpm-macros-2-14.fc39.noarch              138/153 
  Installing       : ocaml-srpm-macros-8-2.fc39.noarch                  139/153 
  Installing       : kernel-srpm-macros-1.0-20.fc39.noarch              140/153 
  Installing       : gnat-srpm-macros-6-3.fc39.noarch                   141/153 
  Installing       : ghc-srpm-macros-1.6.1-2.fc39.noarch                142/153 
  Installing       : fpc-srpm-macros-1.3-8.fc39.noarch                  143/153 
  Installing       : fonts-srpm-macros-1:2.0.5-12.fc39.noarch           144/153 
  Installing       : forge-srpm-macros-0.3.1-1.fc39.noarch              145/153 
  Installing       : go-srpm-macros-3.5.0-1.fc39.noarch                 146/153 
  Installing       : python-srpm-macros-3.12-8.fc39.noarch              147/153 
  Installing       : redhat-rpm-config-266-1.fc39.noarch                148/153 
  Installing       : rpm-build-4.19.1.1-1.fc39.x86_64                   149/153 
  Installing       : pyproject-srpm-macros-1.15.1-1.fc39.noarch         150/153 
  Installing       : util-linux-2.39.4-1.fc39.x86_64                    151/153 
  Running scriptlet: util-linux-2.39.4-1.fc39.x86_64                    151/153 
  Installing       : which-2.21-40.fc39.x86_64                          152/153 
  Installing       : info-7.0.3-3.fc39.x86_64                           153/153 
  Running scriptlet: filesystem-3.18-6.fc39.x86_64                      153/153 
  Running scriptlet: ca-certificates-2024.2.69_v8.0.401-1.0.fc39.noar   153/153 
  Running scriptlet: authselect-libs-1.4.3-1.fc39.x86_64                153/153 
  Running scriptlet: rpm-4.19.1.1-1.fc39.x86_64                         153/153 
  Running scriptlet: info-7.0.3-3.fc39.x86_64                           153/153 
  Verifying        : authselect-1.4.3-1.fc39.x86_64                       1/153 
  Verifying        : authselect-libs-1.4.3-1.fc39.x86_64                  2/153 
  Verifying        : basesystem-11-18.fc39.noarch                         3/153 
  Verifying        : bzip2-1.0.8-16.fc39.x86_64                           4/153 
  Verifying        : bzip2-libs-1.0.8-16.fc39.x86_64                      5/153 
  Verifying        : cpio-2.14-4.fc39.x86_64                              6/153 
  Verifying        : cracklib-2.9.11-2.fc39.x86_64                        7/153 
  Verifying        : cyrus-sasl-lib-2.1.28-11.fc39.x86_64                 8/153 
  Verifying        : diffutils-3.10-3.fc39.x86_64                         9/153 
  Verifying        : dwz-0.15-3.fc39.x86_64                              10/153 
  Verifying        : ed-1.19-4.fc39.x86_64                               11/153 
  Verifying        : efi-srpm-macros-5-9.fc39.noarch                     12/153 
  Verifying        : file-5.44-5.fc39.x86_64                             13/153 
  Verifying        : file-libs-5.44-5.fc39.x86_64                        14/153 
  Verifying        : filesystem-3.18-6.fc39.x86_64                       15/153 
  Verifying        : fonts-srpm-macros-1:2.0.5-12.fc39.noarch            16/153 
  Verifying        : fpc-srpm-macros-1.3-8.fc39.noarch                   17/153 
  Verifying        : gawk-5.2.2-2.fc39.x86_64                            18/153 
  Verifying        : gdbm-libs-1:1.23-4.fc39.x86_64                      19/153 
  Verifying        : ghc-srpm-macros-1.6.1-2.fc39.noarch                 20/153 
  Verifying        : gmp-1:6.2.1-5.fc39.x86_64                           21/153 
  Verifying        : gnat-srpm-macros-6-3.fc39.noarch                    22/153 
  Verifying        : grep-3.11-3.fc39.x86_64                             23/153 
  Verifying        : gzip-1.12-6.fc39.x86_64                             24/153 
  Verifying        : info-7.0.3-3.fc39.x86_64                            25/153 
  Verifying        : jansson-2.13.1-7.fc39.x86_64                        26/153 
  Verifying        : kernel-srpm-macros-1.0-20.fc39.noarch               27/153 
  Verifying        : libattr-2.5.1-8.fc39.x86_64                         28/153 
  Verifying        : libbrotli-1.1.0-1.fc39.x86_64                       29/153 
  Verifying        : libcap-ng-0.8.3-8.fc39.x86_64                       30/153 
  Verifying        : libcom_err-1.47.0-2.fc39.x86_64                     31/153 
  Verifying        : libdb-5.3.28-56.fc39.x86_64                         32/153 
  Verifying        : libevent-2.1.12-9.fc39.x86_64                       33/153 
  Verifying        : libffi-3.4.4-4.fc39.x86_64                          34/153 
  Verifying        : libnsl2-2.0.0-6.fc39.x86_64                         35/153 
  Verifying        : libpkgconf-1.9.5-2.fc39.x86_64                      36/153 
  Verifying        : libpsl-0.21.2-4.fc39.x86_64                         37/153 
  Verifying        : libpwquality-1.4.5-6.fc39.x86_64                    38/153 
  Verifying        : libselinux-3.5-5.fc39.x86_64                        39/153 
  Verifying        : libsemanage-3.5-4.fc39.x86_64                       40/153 
  Verifying        : libsepol-3.5-2.fc39.x86_64                          41/153 
  Verifying        : libsigsegv-2.14-5.fc39.x86_64                       42/153 
  Verifying        : libtasn1-4.19.0-3.fc39.x86_64                       43/153 
  Verifying        : libtool-ltdl-2.4.7-7.fc39.x86_64                    44/153 
  Verifying        : libunistring-1.1-5.fc39.x86_64                      45/153 
  Verifying        : libutempter-1.2.1-10.fc39.x86_64                    46/153 
  Verifying        : libverto-0.3.2-6.fc39.x86_64                        47/153 
  Verifying        : libxcrypt-4.4.36-2.fc39.x86_64                      48/153 
  Verifying        : libxml2-2.10.4-3.fc39.x86_64                        49/153 
  Verifying        : lua-libs-5.4.6-3.fc39.x86_64                        50/153 
  Verifying        : lz4-libs-1.9.4-4.fc39.x86_64                        51/153 
  Verifying        : mpfr-4.2.0-3.fc39.x86_64                            52/153 
  Verifying        : ocaml-srpm-macros-8-2.fc39.noarch                   53/153 
  Verifying        : openblas-srpm-macros-2-14.fc39.noarch               54/153 
  Verifying        : package-notes-srpm-macros-0.5-9.fc39.noarch         55/153 
  Verifying        : patch-2.7.6-22.fc39.x86_64                          56/153 
  Verifying        : pcre2-10.42-1.fc39.2.x86_64                         57/153 
  Verifying        : pcre2-syntax-10.42-1.fc39.2.noarch                  58/153 
  Verifying        : perl-srpm-macros-1-51.fc39.noarch                   59/153 
  Verifying        : pkgconf-1.9.5-2.fc39.x86_64                         60/153 
  Verifying        : pkgconf-m4-1.9.5-2.fc39.noarch                      61/153 
  Verifying        : pkgconf-pkg-config-1.9.5-2.fc39.x86_64              62/153 
  Verifying        : popt-1.19-3.fc39.x86_64                             63/153 
  Verifying        : sed-4.8-14.fc39.x86_64                              64/153 
  Verifying        : setup-2.14.4-1.fc39.noarch                          65/153 
  Verifying        : sqlite-libs-3.42.0-7.fc39.x86_64                    66/153 
  Verifying        : tar-2:1.35-2.fc39.x86_64                            67/153 
  Verifying        : unzip-6.0-62.fc39.x86_64                            68/153 
  Verifying        : which-2.21-40.fc39.x86_64                           69/153 
  Verifying        : xz-5.4.4-1.fc39.x86_64                              70/153 
  Verifying        : xz-libs-5.4.4-1.fc39.x86_64                         71/153 
  Verifying        : zip-3.0-39.fc39.x86_64                              72/153 
  Verifying        : zlib-1.2.13-4.fc39.x86_64                           73/153 
  Verifying        : alternatives-1.26-1.fc39.x86_64                     74/153 
  Verifying        : ansible-srpm-macros-1-12.fc39.noarch                75/153 
  Verifying        : audit-libs-3.1.5-1.fc39.x86_64                      76/153 
  Verifying        : bash-5.2.26-1.fc39.x86_64                           77/153 
  Verifying        : binutils-2.40-14.fc39.x86_64                        78/153 
  Verifying        : binutils-gold-2.40-14.fc39.x86_64                   79/153 
  Verifying        : ca-certificates-2024.2.69_v8.0.401-1.0.fc39.noar    80/153 
  Verifying        : coreutils-9.3-7.fc39.x86_64                         81/153 
  Verifying        : coreutils-common-9.3-7.fc39.x86_64                  82/153 
  Verifying        : crypto-policies-20231204-1.git1e3a2e4.fc39.noarc    83/153 
  Verifying        : curl-8.2.1-5.fc39.x86_64                            84/153 
  Verifying        : debugedit-5.0-12.fc39.x86_64                        85/153 
  Verifying        : elfutils-0.191-2.fc39.x86_64                        86/153 
  Verifying        : elfutils-debuginfod-client-0.191-2.fc39.x86_64      87/153 
  Verifying        : elfutils-default-yama-scope-0.191-2.fc39.noarch     88/153 
  Verifying        : elfutils-libelf-0.191-2.fc39.x86_64                 89/153 
  Verifying        : elfutils-libs-0.191-2.fc39.x86_64                   90/153 
  Verifying        : fedora-gpg-keys-39-2.noarch                         91/153 
  Verifying        : fedora-release-39-36.noarch                         92/153 
  Verifying        : fedora-release-common-39-36.noarch                  93/153 
  Verifying        : fedora-release-identity-basic-39-36.noarch          94/153 
  Verifying        : fedora-repos-39-2.noarch                            95/153 
  Verifying        : findutils-1:4.9.0-6.fc39.x86_64                     96/153 
  Verifying        : forge-srpm-macros-0.3.1-1.fc39.noarch               97/153 
  Verifying        : gdb-minimal-15.1-1.fc39.x86_64                      98/153 
  Verifying        : glibc-2.38-19.fc39.x86_64                           99/153 
  Verifying        : glibc-common-2.38-19.fc39.x86_64                   100/153 
  Verifying        : glibc-gconv-extra-2.38-19.fc39.x86_64              101/153 
  Verifying        : glibc-minimal-langpack-2.38-19.fc39.x86_64         102/153 
  Verifying        : go-srpm-macros-3.5.0-1.fc39.noarch                 103/153 
  Verifying        : keyutils-libs-1.6.3-1.fc39.x86_64                  104/153 
  Verifying        : krb5-libs-1.21.3-1.fc39.x86_64                     105/153 
  Verifying        : libacl-2.3.1-9.fc39.x86_64                         106/153 
  Verifying        : libarchive-3.7.1-2.fc39.x86_64                     107/153 
  Verifying        : libblkid-2.39.4-1.fc39.x86_64                      108/153 
  Verifying        : libcap-2.48-9.fc39.x86_64                          109/153 
  Verifying        : libcurl-8.2.1-5.fc39.x86_64                        110/153 
  Verifying        : libeconf-0.5.2-2.fc39.x86_64                       111/153 
  Verifying        : libfdisk-2.39.4-1.fc39.x86_64                      112/153 
  Verifying        : libgcc-13.3.1-3.fc39.x86_64                        113/153 
  Verifying        : libgomp-13.3.1-3.fc39.x86_64                       114/153 
  Verifying        : libidn2-2.3.7-1.fc39.x86_64                        115/153 
  Verifying        : libmount-2.39.4-1.fc39.x86_64                      116/153 
  Verifying        : libnghttp2-1.55.1-5.fc39.x86_64                    117/153 
  Verifying        : libsmartcols-2.39.4-1.fc39.x86_64                  118/153 
  Verifying        : libssh-0.10.6-2.fc39.x86_64                        119/153 
  Verifying        : libssh-config-0.10.6-2.fc39.noarch                 120/153 
  Verifying        : libstdc++-13.3.1-3.fc39.x86_64                     121/153 
  Verifying        : libtirpc-1.3.5-0.fc39.x86_64                       122/153 
  Verifying        : libuuid-2.39.4-1.fc39.x86_64                       123/153 
  Verifying        : libzstd-1.5.6-1.fc39.x86_64                        124/153 
  Verifying        : lua-srpm-macros-1-13.fc39.noarch                   125/153 
  Verifying        : ncurses-base-6.4-7.20230520.fc39.1.noarch          126/153 
  Verifying        : ncurses-libs-6.4-7.20230520.fc39.1.x86_64          127/153 
  Verifying        : openldap-2.6.7-1.fc39.x86_64                       128/153 
  Verifying        : openssl-libs-1:3.1.4-4.fc39.x86_64                 129/153 
  Verifying        : p11-kit-0.25.5-1.fc39.x86_64                       130/153 
  Verifying        : p11-kit-trust-0.25.5-1.fc39.x86_64                 131/153 
  Verifying        : pam-1.5.3-3.fc39.x86_64                            132/153 
  Verifying        : pam-libs-1.5.3-3.fc39.x86_64                       133/153 
  Verifying        : publicsuffix-list-dafsa-20240107-1.fc39.noarch     134/153 
  Verifying        : pyproject-srpm-macros-1.15.1-1.fc39.noarch         135/153 
  Verifying        : python-srpm-macros-3.12-8.fc39.noarch              136/153 
  Verifying        : qt5-srpm-macros-5.15.14-2.fc39.noarch              137/153 
  Verifying        : qt6-srpm-macros-6.6.2-1.fc39.noarch                138/153 
  Verifying        : readline-8.2-6.fc39.x86_64                         139/153 
  Verifying        : redhat-rpm-config-266-1.fc39.noarch                140/153 
  Verifying        : rpm-4.19.1.1-1.fc39.x86_64                         141/153 
  Verifying        : rpm-build-4.19.1.1-1.fc39.x86_64                   142/153 
  Verifying        : rpm-build-libs-4.19.1.1-1.fc39.x86_64              143/153 
  Verifying        : rpm-libs-4.19.1.1-1.fc39.x86_64                    144/153 
  Verifying        : rpm-sequoia-1.7.0-1.fc39.x86_64                    145/153 
  Verifying        : rpmautospec-rpm-macros-0.7.2-1.fc39.noarch         146/153 
  Verifying        : rust-srpm-macros-26.3-1.fc39.noarch                147/153 
  Verifying        : shadow-utils-2:4.14.0-2.fc39.x86_64                148/153 
  Verifying        : systemd-libs-254.19-1.fc39.x86_64                  149/153 
  Verifying        : util-linux-2.39.4-1.fc39.x86_64                    150/153 
  Verifying        : util-linux-core-2.39.4-1.fc39.x86_64               151/153 
  Verifying        : xxhash-libs-0.8.2-4.fc39.x86_64                    152/153 
  Verifying        : zstd-1.5.6-1.fc39.x86_64                           153/153 
Installed products updated.

Installed:
  alternatives-1.26-1.fc39.x86_64                                               
  ansible-srpm-macros-1-12.fc39.noarch                                          
  audit-libs-3.1.5-1.fc39.x86_64                                                
  authselect-1.4.3-1.fc39.x86_64                                                
  authselect-libs-1.4.3-1.fc39.x86_64                                           
  basesystem-11-18.fc39.noarch                                                  
  bash-5.2.26-1.fc39.x86_64                                                     
  binutils-2.40-14.fc39.x86_64                                                  
  binutils-gold-2.40-14.fc39.x86_64                                             
  bzip2-1.0.8-16.fc39.x86_64                                                    
  bzip2-libs-1.0.8-16.fc39.x86_64                                               
  ca-certificates-2024.2.69_v8.0.401-1.0.fc39.noarch                            
  coreutils-9.3-7.fc39.x86_64                                                   
  coreutils-common-9.3-7.fc39.x86_64                                            
  cpio-2.14-4.fc39.x86_64                                                       
  cracklib-2.9.11-2.fc39.x86_64                                                 
  crypto-policies-20231204-1.git1e3a2e4.fc39.noarch                             
  curl-8.2.1-5.fc39.x86_64                                                      
  cyrus-sasl-lib-2.1.28-11.fc39.x86_64                                          
  debugedit-5.0-12.fc39.x86_64                                                  
  diffutils-3.10-3.fc39.x86_64                                                  
  dwz-0.15-3.fc39.x86_64                                                        
  ed-1.19-4.fc39.x86_64                                                         
  efi-srpm-macros-5-9.fc39.noarch                                               
  elfutils-0.191-2.fc39.x86_64                                                  
  elfutils-debuginfod-client-0.191-2.fc39.x86_64                                
  elfutils-default-yama-scope-0.191-2.fc39.noarch                               
  elfutils-libelf-0.191-2.fc39.x86_64                                           
  elfutils-libs-0.191-2.fc39.x86_64                                             
  fedora-gpg-keys-39-2.noarch                                                   
  fedora-release-39-36.noarch                                                   
  fedora-release-common-39-36.noarch                                            
  fedora-release-identity-basic-39-36.noarch                                    
  fedora-repos-39-2.noarch                                                      
  file-5.44-5.fc39.x86_64                                                       
  file-libs-5.44-5.fc39.x86_64                                                  
  filesystem-3.18-6.fc39.x86_64                                                 
  findutils-1:4.9.0-6.fc39.x86_64                                               
  fonts-srpm-macros-1:2.0.5-12.fc39.noarch                                      
  forge-srpm-macros-0.3.1-1.fc39.noarch                                         
  fpc-srpm-macros-1.3-8.fc39.noarch                                             
  gawk-5.2.2-2.fc39.x86_64                                                      
  gdb-minimal-15.1-1.fc39.x86_64                                                
  gdbm-libs-1:1.23-4.fc39.x86_64                                                
  ghc-srpm-macros-1.6.1-2.fc39.noarch                                           
  glibc-2.38-19.fc39.x86_64                                                     
  glibc-common-2.38-19.fc39.x86_64                                              
  glibc-gconv-extra-2.38-19.fc39.x86_64                                         
  glibc-minimal-langpack-2.38-19.fc39.x86_64                                    
  gmp-1:6.2.1-5.fc39.x86_64                                                     
  gnat-srpm-macros-6-3.fc39.noarch                                              
  go-srpm-macros-3.5.0-1.fc39.noarch                                            
  grep-3.11-3.fc39.x86_64                                                       
  gzip-1.12-6.fc39.x86_64                                                       
  info-7.0.3-3.fc39.x86_64                                                      
  jansson-2.13.1-7.fc39.x86_64                                                  
  kernel-srpm-macros-1.0-20.fc39.noarch                                         
  keyutils-libs-1.6.3-1.fc39.x86_64                                             
  krb5-libs-1.21.3-1.fc39.x86_64                                                
  libacl-2.3.1-9.fc39.x86_64                                                    
  libarchive-3.7.1-2.fc39.x86_64                                                
  libattr-2.5.1-8.fc39.x86_64                                                   
  libblkid-2.39.4-1.fc39.x86_64                                                 
  libbrotli-1.1.0-1.fc39.x86_64                                                 
  libcap-2.48-9.fc39.x86_64                                                     
  libcap-ng-0.8.3-8.fc39.x86_64                                                 
  libcom_err-1.47.0-2.fc39.x86_64                                               
  libcurl-8.2.1-5.fc39.x86_64                                                   
  libdb-5.3.28-56.fc39.x86_64                                                   
  libeconf-0.5.2-2.fc39.x86_64                                                  
  libevent-2.1.12-9.fc39.x86_64                                                 
  libfdisk-2.39.4-1.fc39.x86_64                                                 
  libffi-3.4.4-4.fc39.x86_64                                                    
  libgcc-13.3.1-3.fc39.x86_64                                                   
  libgomp-13.3.1-3.fc39.x86_64                                                  
  libidn2-2.3.7-1.fc39.x86_64                                                   
  libmount-2.39.4-1.fc39.x86_64                                                 
  libnghttp2-1.55.1-5.fc39.x86_64                                               
  libnsl2-2.0.0-6.fc39.x86_64                                                   
  libpkgconf-1.9.5-2.fc39.x86_64                                                
  libpsl-0.21.2-4.fc39.x86_64                                                   
  libpwquality-1.4.5-6.fc39.x86_64                                              
  libselinux-3.5-5.fc39.x86_64                                                  
  libsemanage-3.5-4.fc39.x86_64                                                 
  libsepol-3.5-2.fc39.x86_64                                                    
  libsigsegv-2.14-5.fc39.x86_64                                                 
  libsmartcols-2.39.4-1.fc39.x86_64                                             
  libssh-0.10.6-2.fc39.x86_64                                                   
  libssh-config-0.10.6-2.fc39.noarch                                            
  libstdc++-13.3.1-3.fc39.x86_64                                                
  libtasn1-4.19.0-3.fc39.x86_64                                                 
  libtirpc-1.3.5-0.fc39.x86_64                                                  
  libtool-ltdl-2.4.7-7.fc39.x86_64                                              
  libunistring-1.1-5.fc39.x86_64                                                
  libutempter-1.2.1-10.fc39.x86_64                                              
  libuuid-2.39.4-1.fc39.x86_64                                                  
  libverto-0.3.2-6.fc39.x86_64                                                  
  libxcrypt-4.4.36-2.fc39.x86_64                                                
  libxml2-2.10.4-3.fc39.x86_64                                                  
  libzstd-1.5.6-1.fc39.x86_64                                                   
  lua-libs-5.4.6-3.fc39.x86_64                                                  
  lua-srpm-macros-1-13.fc39.noarch                                              
  lz4-libs-1.9.4-4.fc39.x86_64                                                  
  mpfr-4.2.0-3.fc39.x86_64                                                      
  ncurses-base-6.4-7.20230520.fc39.1.noarch                                     
  ncurses-libs-6.4-7.20230520.fc39.1.x86_64                                     
  ocaml-srpm-macros-8-2.fc39.noarch                                             
  openblas-srpm-macros-2-14.fc39.noarch                                         
  openldap-2.6.7-1.fc39.x86_64                                                  
  openssl-libs-1:3.1.4-4.fc39.x86_64                                            
  p11-kit-0.25.5-1.fc39.x86_64                                                  
  p11-kit-trust-0.25.5-1.fc39.x86_64                                            
  package-notes-srpm-macros-0.5-9.fc39.noarch                                   
  pam-1.5.3-3.fc39.x86_64                                                       
  pam-libs-1.5.3-3.fc39.x86_64                                                  
  patch-2.7.6-22.fc39.x86_64                                                    
  pcre2-10.42-1.fc39.2.x86_64                                                   
  pcre2-syntax-10.42-1.fc39.2.noarch                                            
  perl-srpm-macros-1-51.fc39.noarch                                             
  pkgconf-1.9.5-2.fc39.x86_64                                                   
  pkgconf-m4-1.9.5-2.fc39.noarch                                                
  pkgconf-pkg-config-1.9.5-2.fc39.x86_64                                        
  popt-1.19-3.fc39.x86_64                                                       
  publicsuffix-list-dafsa-20240107-1.fc39.noarch                                
  pyproject-srpm-macros-1.15.1-1.fc39.noarch                                    
  python-srpm-macros-3.12-8.fc39.noarch                                         
  qt5-srpm-macros-5.15.14-2.fc39.noarch                                         
  qt6-srpm-macros-6.6.2-1.fc39.noarch                                           
  readline-8.2-6.fc39.x86_64                                                    
  redhat-rpm-config-266-1.fc39.noarch                                           
  rpm-4.19.1.1-1.fc39.x86_64                                                    
  rpm-build-4.19.1.1-1.fc39.x86_64                                              
  rpm-build-libs-4.19.1.1-1.fc39.x86_64                                         
  rpm-libs-4.19.1.1-1.fc39.x86_64                                               
  rpm-sequoia-1.7.0-1.fc39.x86_64                                               
  rpmautospec-rpm-macros-0.7.2-1.fc39.noarch                                    
  rust-srpm-macros-26.3-1.fc39.noarch                                           
  sed-4.8-14.fc39.x86_64                                                        
  setup-2.14.4-1.fc39.noarch                                                    
  shadow-utils-2:4.14.0-2.fc39.x86_64                                           
  sqlite-libs-3.42.0-7.fc39.x86_64                                              
  systemd-libs-254.19-1.fc39.x86_64                                             
  tar-2:1.35-2.fc39.x86_64                                                      
  unzip-6.0-62.fc39.x86_64                                                      
  util-linux-2.39.4-1.fc39.x86_64                                               
  util-linux-core-2.39.4-1.fc39.x86_64                                          
  which-2.21-40.fc39.x86_64                                                     
  xxhash-libs-0.8.2-4.fc39.x86_64                                               
  xz-5.4.4-1.fc39.x86_64                                                        
  xz-libs-5.4.4-1.fc39.x86_64                                                   
  zip-3.0-39.fc39.x86_64                                                        
  zlib-1.2.13-4.fc39.x86_64                                                     
  zstd-1.5.6-1.fc39.x86_64                                                      

Complete!
Finish: installing minimal buildroot with dnf
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
INFO: alternatives-1.26-1.fc39.x86_64
ansible-srpm-macros-1-12.fc39.noarch
audit-libs-3.1.5-1.fc39.x86_64
authselect-1.4.3-1.fc39.x86_64
authselect-libs-1.4.3-1.fc39.x86_64
basesystem-11-18.fc39.noarch
bash-5.2.26-1.fc39.x86_64
binutils-2.40-14.fc39.x86_64
binutils-gold-2.40-14.fc39.x86_64
bzip2-1.0.8-16.fc39.x86_64
bzip2-libs-1.0.8-16.fc39.x86_64
ca-certificates-2024.2.69_v8.0.401-1.0.fc39.noarch
coreutils-9.3-7.fc39.x86_64
coreutils-common-9.3-7.fc39.x86_64
cpio-2.14-4.fc39.x86_64
cracklib-2.9.11-2.fc39.x86_64
crypto-policies-20231204-1.git1e3a2e4.fc39.noarch
curl-8.2.1-5.fc39.x86_64
cyrus-sasl-lib-2.1.28-11.fc39.x86_64
debugedit-5.0-12.fc39.x86_64
diffutils-3.10-3.fc39.x86_64
dwz-0.15-3.fc39.x86_64
ed-1.19-4.fc39.x86_64
efi-srpm-macros-5-9.fc39.noarch
elfutils-0.191-2.fc39.x86_64
elfutils-debuginfod-client-0.191-2.fc39.x86_64
elfutils-default-yama-scope-0.191-2.fc39.noarch
elfutils-libelf-0.191-2.fc39.x86_64
elfutils-libs-0.191-2.fc39.x86_64
fedora-gpg-keys-39-2.noarch
fedora-release-39-36.noarch
fedora-release-common-39-36.noarch
fedora-release-identity-basic-39-36.noarch
fedora-repos-39-2.noarch
file-5.44-5.fc39.x86_64
file-libs-5.44-5.fc39.x86_64
filesystem-3.18-6.fc39.x86_64
findutils-4.9.0-6.fc39.x86_64
fonts-srpm-macros-2.0.5-12.fc39.noarch
forge-srpm-macros-0.3.1-1.fc39.noarch
fpc-srpm-macros-1.3-8.fc39.noarch
gawk-5.2.2-2.fc39.x86_64
gdb-minimal-15.1-1.fc39.x86_64
gdbm-libs-1.23-4.fc39.x86_64
ghc-srpm-macros-1.6.1-2.fc39.noarch
glibc-2.38-19.fc39.x86_64
glibc-common-2.38-19.fc39.x86_64
glibc-gconv-extra-2.38-19.fc39.x86_64
glibc-minimal-langpack-2.38-19.fc39.x86_64
gmp-6.2.1-5.fc39.x86_64
gnat-srpm-macros-6-3.fc39.noarch
go-srpm-macros-3.5.0-1.fc39.noarch
gpg-pubkey-18b8e74c-62f2920f
grep-3.11-3.fc39.x86_64
gzip-1.12-6.fc39.x86_64
info-7.0.3-3.fc39.x86_64
jansson-2.13.1-7.fc39.x86_64
kernel-srpm-macros-1.0-20.fc39.noarch
keyutils-libs-1.6.3-1.fc39.x86_64
krb5-libs-1.21.3-1.fc39.x86_64
libacl-2.3.1-9.fc39.x86_64
libarchive-3.7.1-2.fc39.x86_64
libattr-2.5.1-8.fc39.x86_64
libblkid-2.39.4-1.fc39.x86_64
libbrotli-1.1.0-1.fc39.x86_64
libcap-2.48-9.fc39.x86_64
libcap-ng-0.8.3-8.fc39.x86_64
libcom_err-1.47.0-2.fc39.x86_64
libcurl-8.2.1-5.fc39.x86_64
libdb-5.3.28-56.fc39.x86_64
libeconf-0.5.2-2.fc39.x86_64
libevent-2.1.12-9.fc39.x86_64
libfdisk-2.39.4-1.fc39.x86_64
libffi-3.4.4-4.fc39.x86_64
libgcc-13.3.1-3.fc39.x86_64
libgomp-13.3.1-3.fc39.x86_64
libidn2-2.3.7-1.fc39.x86_64
libmount-2.39.4-1.fc39.x86_64
libnghttp2-1.55.1-5.fc39.x86_64
libnsl2-2.0.0-6.fc39.x86_64
libpkgconf-1.9.5-2.fc39.x86_64
libpsl-0.21.2-4.fc39.x86_64
libpwquality-1.4.5-6.fc39.x86_64
libselinux-3.5-5.fc39.x86_64
libsemanage-3.5-4.fc39.x86_64
libsepol-3.5-2.fc39.x86_64
libsigsegv-2.14-5.fc39.x86_64
libsmartcols-2.39.4-1.fc39.x86_64
libssh-0.10.6-2.fc39.x86_64
libssh-config-0.10.6-2.fc39.noarch
libstdc++-13.3.1-3.fc39.x86_64
libtasn1-4.19.0-3.fc39.x86_64
libtirpc-1.3.5-0.fc39.x86_64
libtool-ltdl-2.4.7-7.fc39.x86_64
libunistring-1.1-5.fc39.x86_64
libutempter-1.2.1-10.fc39.x86_64
libuuid-2.39.4-1.fc39.x86_64
libverto-0.3.2-6.fc39.x86_64
libxcrypt-4.4.36-2.fc39.x86_64
libxml2-2.10.4-3.fc39.x86_64
libzstd-1.5.6-1.fc39.x86_64
lua-libs-5.4.6-3.fc39.x86_64
lua-srpm-macros-1-13.fc39.noarch
lz4-libs-1.9.4-4.fc39.x86_64
mpfr-4.2.0-3.fc39.x86_64
ncurses-base-6.4-7.20230520.fc39.1.noarch
ncurses-libs-6.4-7.20230520.fc39.1.x86_64
ocaml-srpm-macros-8-2.fc39.noarch
openblas-srpm-macros-2-14.fc39.noarch
openldap-2.6.7-1.fc39.x86_64
openssl-libs-3.1.4-4.fc39.x86_64
p11-kit-0.25.5-1.fc39.x86_64
p11-kit-trust-0.25.5-1.fc39.x86_64
package-notes-srpm-macros-0.5-9.fc39.noarch
pam-1.5.3-3.fc39.x86_64
pam-libs-1.5.3-3.fc39.x86_64
patch-2.7.6-22.fc39.x86_64
pcre2-10.42-1.fc39.2.x86_64
pcre2-syntax-10.42-1.fc39.2.noarch
perl-srpm-macros-1-51.fc39.noarch
pkgconf-1.9.5-2.fc39.x86_64
pkgconf-m4-1.9.5-2.fc39.noarch
pkgconf-pkg-config-1.9.5-2.fc39.x86_64
popt-1.19-3.fc39.x86_64
publicsuffix-list-dafsa-20240107-1.fc39.noarch
pyproject-srpm-macros-1.15.1-1.fc39.noarch
python-srpm-macros-3.12-8.fc39.noarch
qt5-srpm-macros-5.15.14-2.fc39.noarch
qt6-srpm-macros-6.6.2-1.fc39.noarch
readline-8.2-6.fc39.x86_64
redhat-rpm-config-266-1.fc39.noarch
rpm-4.19.1.1-1.fc39.x86_64
rpm-build-4.19.1.1-1.fc39.x86_64
rpm-build-libs-4.19.1.1-1.fc39.x86_64
rpm-libs-4.19.1.1-1.fc39.x86_64
rpm-sequoia-1.7.0-1.fc39.x86_64
rpmautospec-rpm-macros-0.7.2-1.fc39.noarch
rust-srpm-macros-26.3-1.fc39.noarch
sed-4.8-14.fc39.x86_64
setup-2.14.4-1.fc39.noarch
shadow-utils-4.14.0-2.fc39.x86_64
sqlite-libs-3.42.0-7.fc39.x86_64
systemd-libs-254.19-1.fc39.x86_64
tar-1.35-2.fc39.x86_64
unzip-6.0-62.fc39.x86_64
util-linux-2.39.4-1.fc39.x86_64
util-linux-core-2.39.4-1.fc39.x86_64
which-2.21-40.fc39.x86_64
xxhash-libs-0.8.2-4.fc39.x86_64
xz-5.4.4-1.fc39.x86_64
xz-libs-5.4.4-1.fc39.x86_64
zip-3.0-39.fc39.x86_64
zlib-1.2.13-4.fc39.x86_64
zstd-1.5.6-1.fc39.x86_64
Start: buildsrpm
Start: rpmbuild -bs
warning: source_date_epoch_from_changelog set but %changelog is missing
Building target platforms: x86_64
Building for target x86_64
Wrote: /builddir/build/SRPMS/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.src.rpm

RPM build warnings:
    source_date_epoch_from_changelog set but %changelog is missing
Finish: rpmbuild -bs
INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-39-x86_64-1730339473.970307/root/var/log/dnf.log
/var/lib/mock/fedora-39-x86_64-1730339473.970307/root/var/log/dnf.librepo.log
/var/lib/mock/fedora-39-x86_64-1730339473.970307/root/var/log/dnf.rpm.log
INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz
/bin/tar: Removing leading `/' from member names
Finish: buildsrpm
INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-_yimcfvi/R-CRAN-rxode2/R-CRAN-rxode2.spec) Config(child) 0 minutes 22 seconds
INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results
INFO: Cleaning up build root ('cleanup_on_success=True')
Start: clean chroot
INFO: unmounting tmpfs.
Finish: clean chroot
INFO: Start(/var/lib/copr-rpmbuild/results/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.src.rpm)  Config(fedora-39-x86_64)
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-39-x86_64-1730339473.970307/root.
INFO: calling preinit hooks
INFO: enabled root cache
Start: unpacking root cache
Finish: unpacking root cache
INFO: enabled package manager cache
Start: cleaning package manager metadata
Finish: cleaning package manager metadata
INFO: enabled HW Info plugin
INFO: Buildroot is handled by package management from host and used with --installroot:
  rpm-4.19.1.1-1.fc39.x86_64
  rpm-sequoia-1.6.0-1.fc39.x86_64
  python3-dnf-4.21.1-1.fc39.noarch
  python3-dnf-plugins-core-4.9.0-1.fc39.noarch
  yum-4.21.1-1.fc39.noarch
  dnf5-5.1.17-2.fc39.x86_64
  dnf5-plugins-5.1.17-2.fc39.x86_64
Finish: chroot init
Start: build phase for R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.src.rpm
Start: build setup for R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.src.rpm
warning: source_date_epoch_from_changelog set but %changelog is missing
Building target platforms: x86_64
Building for target x86_64
Wrote: /builddir/build/SRPMS/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.src.rpm

RPM build warnings:
    source_date_epoch_from_changelog set but %changelog is missing
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                                  35 kB/s | 1.5 kB     00:00    
Copr repository                                  69 MB/s |  27 MB     00:00    
fedora                                          924 kB/s |  31 kB     00:00    
updates                                         755 kB/s |  27 kB     00:00    
Dependencies resolved.
==========================================================================================
 Package                         Arch    Version                          Repo        Size
==========================================================================================
Installing:
 R-CRAN-BH                       noarch  1.84.0.0-1.fc39.copr6880886      copr_base  9.8 M
 R-CRAN-PreciseSums              x86_64  0.7-1.fc39.copr8029450           copr_base   48 k
 R-CRAN-Rcpp                     x86_64  1.0.13-1.fc39.copr7745410        copr_base  2.0 M
 R-CRAN-RcppArmadillo            x86_64  14.0.2.1-1.fc39.copr8016517      copr_base  918 k
 R-CRAN-RcppEigen                x86_64  0.3.4.0.2-1.fc39.copr8100507     copr_base  1.4 M
 R-CRAN-RcppParallel             x86_64  5.1.9-1.fc39.copr7936852         copr_base  140 k
 R-CRAN-StanHeaders              x86_64  2.32.10-1.fc39.copr7736967       copr_base  1.6 M
 R-CRAN-backports                x86_64  1.5.0-1.fc39.copr7483453         copr_base  140 k
 R-CRAN-checkmate                x86_64  2.3.2-1.fc39.copr7803006         copr_base  743 k
 R-CRAN-cli                      x86_64  3.6.3-1.fc39.copr7649835         copr_base  1.3 M
 R-CRAN-data.table               x86_64  1.16.2-1.fc39.copr8128145        copr_base  2.2 M
 R-CRAN-dparser                  x86_64  1.3.1.13-1.fc39.copr8168029      copr_base  347 k
 R-CRAN-ggplot2                  noarch  3.5.1-1.fc39.copr7342639         copr_base  4.8 M
 R-CRAN-inline                   noarch  0.3.19-1.fc39.copr6279314        copr_base  147 k
 R-CRAN-lotri                    x86_64  1.0.0-1.fc39.copr8032936         copr_base  362 k
 R-CRAN-magrittr                 x86_64  2.0.3-1.fc39.copr6279321         copr_base  222 k
 R-CRAN-memoise                  noarch  2.0.1-1.fc39.copr6285223         copr_base   63 k
 R-CRAN-qs                       x86_64  0.27.2-1.fc39.copr8099906        copr_base  1.4 M
 R-CRAN-rex                      noarch  1.2.1-1.fc39.copr8100517         copr_base  138 k
 R-CRAN-rxode2ll                 x86_64  2.0.11-1.fc39.copr7480751        copr_base  187 k
 R-CRAN-sitmo                    x86_64  2.0.2-1.fc39.copr6282905         copr_base  143 k
 R-CRAN-sys                      x86_64  3.4.3-1.fc39.copr8109592         copr_base   57 k
 R-core                          x86_64  4.3.3-2.fc39                     updates     64 M
 R-devel                         x86_64  4.3.3-2.fc39                     updates     10 k
Installing dependencies:
 R-CRAN-MASS                     x86_64  7.3.60.0.1-1.fc39.copr6895092    copr_base  1.2 M
 R-CRAN-Matrix                   x86_64  1.6.5-1.fc39.copr6886765         copr_base  4.1 M
 R-CRAN-R6                       noarch  2.5.1-1.fc39.copr6279323         copr_base   96 k
 R-CRAN-RApiSerialize            x86_64  0.1.4-1.fc39.copr8089098         copr_base   29 k
 R-CRAN-RColorBrewer             noarch  1.1.3-1.fc39.copr6279333         copr_base   65 k
 R-CRAN-cachem                   x86_64  1.1.0-1.fc39.copr7452047         copr_base   82 k
 R-CRAN-colorspace               x86_64  2.1.1-1.fc39.copr7795131         copr_base  2.5 M
 R-CRAN-crayon                   noarch  1.5.3-1.fc39.copr7633037         copr_base  181 k
 R-CRAN-digest                   x86_64  0.6.37-1.fc39.copr7936834        copr_base  229 k
 R-CRAN-fansi                    x86_64  1.0.6-1.fc39.copr6735917         copr_base  339 k
 R-CRAN-farver                   x86_64  2.1.2-1.fc39.copr7442181         copr_base  1.3 M
 R-CRAN-fastmap                  x86_64  1.2.0-1.fc39.copr7447859         copr_base   79 k
 R-CRAN-glue                     x86_64  1.8.0-1.fc39.copr8094211         copr_base  172 k
 R-CRAN-gtable                   noarch  0.3.6-1.fc39.copr8178682         copr_base  236 k
 R-CRAN-isoband                  x86_64  0.2.7-1.fc39.copr6280488         copr_base  1.6 M
 R-CRAN-labeling                 noarch  0.4.3-1.fc39.copr6354313         copr_base   77 k
 R-CRAN-lattice                  x86_64  0.22.6-1.fc39.copr7307082        copr_base  1.4 M
 R-CRAN-lazyeval                 x86_64  0.2.2-3.fc39.copr6279311         copr_base  165 k
 R-CRAN-lifecycle                noarch  1.0.4-1.fc39.copr6614518         copr_base  130 k
 R-CRAN-mgcv                     x86_64  1.9.1-1.fc39.copr6775870         copr_base  3.3 M
 R-CRAN-munsell                  noarch  0.5.1-1.fc39.copr7306785         copr_base  251 k
 R-CRAN-nlme                     x86_64  3.1.166-1.fc39.copr7936970       copr_base  2.4 M
 R-CRAN-pillar                   noarch  1.9.0-1.fc39.copr6286818         copr_base  626 k
 R-CRAN-pkgconfig                noarch  2.0.3-3.fc39.copr6279322         copr_base   30 k
 R-CRAN-rlang                    x86_64  1.1.4-1.fc39.copr7531082         copr_base  1.6 M
 R-CRAN-scales                   noarch  1.3.0-1.fc39.copr6704012         copr_base  707 k
 R-CRAN-stringfish               x86_64  0.16.0-1.fc39.copr6704019        copr_base  411 k
 R-CRAN-tibble                   x86_64  3.2.1-1.fc39.copr6288598         copr_base  632 k
 R-CRAN-utf8                     x86_64  1.2.4-1.fc39.copr6555966         copr_base  150 k
 R-CRAN-vctrs                    x86_64  0.6.5-1.fc39.copr6715464         copr_base  1.3 M
 R-CRAN-viridisLite              noarch  0.4.2-1.fc39.copr6279312         copr_base  1.2 M
 R-CRAN-withr                    noarch  3.0.2-1.fc39.copr8184963         copr_base  246 k
 R-core-devel                    x86_64  4.3.3-2.fc39                     updates     93 k
 R-java                          x86_64  4.3.3-2.fc39                     updates     11 k
 R-java-devel                    x86_64  4.3.3-2.fc39                     updates     10 k
 R-littler                       x86_64  0.3.19-1.fc39                    updates     76 k
 R-rpm-macros                    noarch  1.2.1-7.fc39                     fedora      11 k
 abattis-cantarell-vf-fonts      noarch  0.301-10.fc39                    fedora     121 k
 alsa-lib                        x86_64  1.2.12-1.fc39                    updates    521 k
 annobin-docs                    noarch  12.60-1.fc39                     updates     88 k
 annobin-plugin-gcc              x86_64  12.60-1.fc39                     updates    965 k
 avahi-libs                      x86_64  0.8-24.fc39                      fedora      67 k
 brotli                          x86_64  1.1.0-1.fc39                     fedora      20 k
 brotli-devel                    x86_64  1.1.0-1.fc39                     fedora      34 k
 bzip2-devel                     x86_64  1.0.8-16.fc39                    fedora     214 k
 cairo                           x86_64  1.18.0-1.fc39                    fedora     710 k
 cmake-filesystem                x86_64  3.27.7-1.fc39                    fedora      19 k
 copy-jdk-configs                noarch  4.1-3.fc39                       fedora      28 k
 cpp                             x86_64  13.3.1-3.fc39                    updates     11 M
 crypto-policies-scripts         noarch  20231204-1.git1e3a2e4.fc39       updates    117 k
 cups-libs                       x86_64  1:2.4.11-1.fc39                  updates    268 k
 dbus-libs                       x86_64  1:1.14.10-1.fc39                 fedora     156 k
 default-fonts-core-sans         noarch  4.0-9.fc39                       fedora      32 k
 desktop-file-utils              x86_64  0.26-9.fc39                      fedora      72 k
 emacs-filesystem                noarch  1:29.4-2.fc39                    updates    7.3 k
 expat                           x86_64  2.6.3-1.fc39                     updates    114 k
 flexiblas                       x86_64  3.4.4-1.fc39                     updates     25 k
 flexiblas-devel                 x86_64  3.4.4-1.fc39                     updates    121 k
 flexiblas-netlib                x86_64  3.4.4-1.fc39                     updates    3.1 M
 flexiblas-netlib64              x86_64  3.4.4-1.fc39                     updates    3.0 M
 flexiblas-openblas-openmp       x86_64  3.4.4-1.fc39                     updates     17 k
 flexiblas-openblas-openmp64     x86_64  3.4.4-1.fc39                     updates     17 k
 fontconfig                      x86_64  2.14.2-6.fc39                    updates    296 k
 fontconfig-devel                x86_64  2.14.2-6.fc39                    updates    164 k
 fonts-filesystem                noarch  1:2.0.5-12.fc39                  fedora     8.2 k
 freetype                        x86_64  2.13.1-2.fc39                    fedora     414 k
 freetype-devel                  x86_64  2.13.1-2.fc39                    fedora     950 k
 fribidi                         x86_64  1.0.13-2.fc39                    fedora      91 k
 gc                              x86_64  8.2.2-4.fc39                     fedora     110 k
 gcc                             x86_64  13.3.1-3.fc39                    updates     34 M
 gcc-c++                         x86_64  13.3.1-3.fc39                    updates     13 M
 gcc-gfortran                    x86_64  13.3.1-3.fc39                    updates     12 M
 gcc-plugin-annobin              x86_64  13.3.1-3.fc39                    updates     58 k
 gettext                         x86_64  0.22-2.fc39                      fedora     1.1 M
 gettext-envsubst                x86_64  0.22-2.fc39                      fedora      36 k
 gettext-libs                    x86_64  0.22-2.fc39                      fedora     328 k
 gettext-runtime                 x86_64  0.22-2.fc39                      fedora     120 k
 glib2                           x86_64  2.78.6-1.fc39                    updates    2.8 M
 glib2-devel                     x86_64  2.78.6-1.fc39                    updates    594 k
 glibc-devel                     x86_64  2.38-19.fc39                     updates     74 k
 glibc-headers-x86               noarch  2.38-19.fc39                     updates    562 k
 gnutls                          x86_64  3.8.6-1.fc39                     updates    1.1 M
 google-noto-fonts-common        noarch  20240101-1.fc39                  updates     17 k
 google-noto-sans-vf-fonts       noarch  20240101-1.fc39                  updates    593 k
 graphite2                       x86_64  1.3.14-12.fc39                   fedora      95 k
 graphite2-devel                 x86_64  1.3.14-12.fc39                   fedora      20 k
 guile22                         x86_64  2.2.7-9.fc39                     fedora     6.5 M
 harfbuzz                        x86_64  8.2.1-2.fc39                     fedora     975 k
 harfbuzz-devel                  x86_64  8.2.1-2.fc39                     fedora     450 k
 harfbuzz-icu                    x86_64  8.2.1-2.fc39                     fedora      17 k
 java-17-openjdk                 x86_64  1:17.0.12.0.7-2.fc39             updates    399 k
 java-17-openjdk-devel           x86_64  1:17.0.12.0.7-2.fc39             updates    4.7 M
 java-17-openjdk-headless        x86_64  1:17.0.12.0.7-2.fc39             updates     45 M
 javapackages-filesystem         noarch  6.1.0-10.fc39                    fedora      12 k
 jbigkit-libs                    x86_64  2.1-26.fc39                      fedora      53 k
 kernel-headers                  x86_64  6.11.3-100.fc39                  updates    1.6 M
 libICE                          x86_64  1.0.10-11.fc39                   fedora      70 k
 libRmath                        x86_64  4.3.3-2.fc39                     updates    121 k
 libRmath-devel                  x86_64  4.3.3-2.fc39                     updates     16 k
 libSM                           x86_64  1.2.3-13.fc39                    fedora      41 k
 libX11                          x86_64  1.8.9-1.fc39                     updates    650 k
 libX11-common                   noarch  1.8.9-1.fc39                     updates    176 k
 libX11-devel                    x86_64  1.8.9-1.fc39                     updates    1.0 M
 libX11-xcb                      x86_64  1.8.9-1.fc39                     updates     12 k
 libXau                          x86_64  1.0.11-3.fc39                    fedora      31 k
 libXau-devel                    x86_64  1.0.11-3.fc39                    fedora      14 k
 libXcomposite                   x86_64  0.4.5-10.fc39                    fedora      23 k
 libXext                         x86_64  1.3.5-3.fc39                     fedora      39 k
 libXft                          x86_64  2.3.8-3.fc39                     fedora      72 k
 libXft-devel                    x86_64  2.3.8-3.fc39                     fedora      50 k
 libXi                           x86_64  1.8.1-2.fc39                     fedora      40 k
 libXmu                          x86_64  1.1.4-3.fc39                     fedora      76 k
 libXrender                      x86_64  0.9.11-3.fc39                    fedora      27 k
 libXrender-devel                x86_64  0.9.11-3.fc39                    fedora      19 k
 libXt                           x86_64  1.2.1-5.fc39                     fedora     178 k
 libXtst                         x86_64  1.2.4-3.fc39                     fedora      20 k
 libb2                           x86_64  0.98.1-9.fc39                    fedora      25 k
 libblkid-devel                  x86_64  2.39.4-1.fc39                    updates     18 k
 libdatrie                       x86_64  0.2.13-7.fc39                    fedora      32 k
 libffi-devel                    x86_64  3.4.4-4.fc39                     fedora      29 k
 libfontenc                      x86_64  1.1.6-3.fc39                     fedora      32 k
 libgfortran                     x86_64  13.3.1-3.fc39                    updates    909 k
 libicu                          x86_64  73.2-2.fc39                      fedora      11 M
 libicu-devel                    x86_64  73.2-2.fc39                      fedora     924 k
 libjpeg-turbo                   x86_64  2.1.4-3.fc39                     fedora     183 k
 liblerc                         x86_64  4.0.0-4.fc39                     fedora     201 k
 libmount-devel                  x86_64  2.39.4-1.fc39                    updates     18 k
 libmpc                          x86_64  1.3.1-3.fc39                     fedora      70 k
 libpng                          x86_64  2:1.6.37-15.fc39                 fedora     119 k
 libpng-devel                    x86_64  2:1.6.37-15.fc39                 fedora     291 k
 libquadmath                     x86_64  13.3.1-3.fc39                    updates    205 k
 libquadmath-devel               x86_64  13.3.1-3.fc39                    updates     47 k
 libselinux-devel                x86_64  3.5-5.fc39                       fedora     151 k
 libsepol-devel                  x86_64  3.5-2.fc39                       fedora      49 k
 libstdc++-devel                 x86_64  13.3.1-3.fc39                    updates    2.6 M
 libthai                         x86_64  0.1.29-6.fc39                    fedora     213 k
 libtiff                         x86_64  4.4.0-8.fc39                     fedora     202 k
 libtirpc-devel                  x86_64  1.3.5-0.fc39                     updates    125 k
 libwebp                         x86_64  1.3.2-2.fc39                     fedora     284 k
 libxcb                          x86_64  1.13.1-12.fc39                   fedora     233 k
 libxcb-devel                    x86_64  1.13.1-12.fc39                   fedora     1.4 M
 libxcrypt-devel                 x86_64  4.4.36-2.fc39                    fedora      30 k
 libxml2-devel                   x86_64  2.10.4-3.fc39                    fedora     527 k
 lksctp-tools                    x86_64  1.0.20-1.fc39                    updates     97 k
 lua                             x86_64  5.4.6-3.fc39                     fedora     191 k
 lua-posix                       x86_64  36.2.1-3.fc39                    fedora     143 k
 make                            x86_64  1:4.4.1-2.fc39                   fedora     589 k
 mkfontscale                     x86_64  1.2.2-4.fc39                     fedora      32 k
 mpdecimal                       x86_64  2.5.1-7.fc39                     fedora      89 k
 nettle                          x86_64  3.9.1-2.fc39                     fedora     425 k
 nspr                            x86_64  4.35.0-23.fc39                   updates    136 k
 nss                             x86_64  3.104.0-1.fc39                   updates    707 k
 nss-softokn                     x86_64  3.104.0-1.fc39                   updates    421 k
 nss-softokn-freebl              x86_64  3.104.0-1.fc39                   updates    300 k
 nss-sysinit                     x86_64  3.104.0-1.fc39                   updates     18 k
 nss-util                        x86_64  3.104.0-1.fc39                   updates     88 k
 openblas                        x86_64  0.3.21-6.fc39                    fedora      35 k
 openblas-openmp                 x86_64  0.3.21-6.fc39                    fedora     4.9 M
 openblas-openmp64               x86_64  0.3.21-6.fc39                    fedora     4.8 M
 pango                           x86_64  1.51.0-1.fc39                    fedora     343 k
 pcre2-devel                     x86_64  10.42-1.fc39.2                   fedora     505 k
 pcre2-utf16                     x86_64  10.42-1.fc39.2                   fedora     212 k
 pcre2-utf32                     x86_64  10.42-1.fc39.2                   fedora     200 k
 pixman                          x86_64  0.42.2-2.fc39                    fedora     288 k
 python-pip-wheel                noarch  23.2.1-2.fc39                    updates    1.5 M
 python3                         x86_64  3.12.7-1.fc39                    updates     28 k
 python3-libs                    x86_64  3.12.7-1.fc39                    updates    9.2 M
 python3-setuptools              noarch  67.7.2-8.fc39                    updates    1.5 M
 sysprof-capture-devel           x86_64  45.1-1.fc39                      updates     59 k
 tbb                             x86_64  2020.3-20.fc39                   fedora     169 k
 tbb-devel                       x86_64  2020.3-20.fc39                   fedora     335 k
 tcl                             x86_64  1:8.6.12-5.fc39                  fedora     1.1 M
 tcl-devel                       x86_64  1:8.6.12-5.fc39                  fedora     169 k
 tk                              x86_64  1:8.6.12-5.fc39                  fedora     1.6 M
 tk-devel                        x86_64  1:8.6.12-5.fc39                  fedora     537 k
 tre                             x86_64  0.8.0-41.20140228gitc2f5d13.fc39 fedora      43 k
 tre-common                      noarch  0.8.0-41.20140228gitc2f5d13.fc39 fedora      31 k
 tre-devel                       x86_64  0.8.0-41.20140228gitc2f5d13.fc39 fedora      12 k
 ttmkfdir                        x86_64  3.0.9-69.fc39                    fedora      56 k
 tzdata                          noarch  2024a-2.fc39                     updates    715 k
 tzdata-java                     noarch  2024a-2.fc39                     updates    208 k
 xdg-utils                       noarch  1.1.3-15.fc39                    fedora      77 k
 xml-common                      noarch  0.6.3-61.fc39                    fedora      31 k
 xorg-x11-fonts-Type1            noarch  7.5-36.fc39                      fedora     504 k
 xorg-x11-proto-devel            noarch  2023.2-2.fc39                    fedora     298 k
 xz-devel                        x86_64  5.4.4-1.fc39                     fedora      66 k
 zlib-devel                      x86_64  1.2.13-4.fc39                    fedora      45 k

Transaction Summary
==========================================================================================
Install  211 Packages

Total size: 322 M
Total download size: 23 M
Installed size: 1.0 G
Downloading Packages:
[SKIPPED] R-CRAN-MASS-7.3.60.0.1-1.fc39.copr6895092.x86_64.rpm: Already downloaded
[SKIPPED] R-CRAN-Matrix-1.6.5-1.fc39.copr6886765.x86_64.rpm: Already downloaded
[SKIPPED] R-CRAN-R6-2.5.1-1.fc39.copr6279323.noarch.rpm: Already downloaded    
[SKIPPED] R-CRAN-RColorBrewer-1.1.3-1.fc39.copr6279333.noarch.rpm: Already downloaded
[SKIPPED] R-CRAN-cli-3.6.3-1.fc39.copr7649835.x86_64.rpm: Already downloaded   
[SKIPPED] R-CRAN-colorspace-2.1.1-1.fc39.copr7795131.x86_64.rpm: Already downloaded
[SKIPPED] R-CRAN-fansi-1.0.6-1.fc39.copr6735917.x86_64.rpm: Already downloaded 
[SKIPPED] R-CRAN-farver-2.1.2-1.fc39.copr7442181.x86_64.rpm: Already downloaded
[SKIPPED] R-CRAN-ggplot2-3.5.1-1.fc39.copr7342639.noarch.rpm: Already downloaded
[SKIPPED] R-CRAN-glue-1.8.0-1.fc39.copr8094211.x86_64.rpm: Already downloaded  
[SKIPPED] R-CRAN-gtable-0.3.6-1.fc39.copr8178682.noarch.rpm: Already downloaded
[SKIPPED] R-CRAN-isoband-0.2.7-1.fc39.copr6280488.x86_64.rpm: Already downloaded
[SKIPPED] R-CRAN-labeling-0.4.3-1.fc39.copr6354313.noarch.rpm: Already downloaded
[SKIPPED] R-CRAN-lattice-0.22.6-1.fc39.copr7307082.x86_64.rpm: Already downloaded
[SKIPPED] R-CRAN-lifecycle-1.0.4-1.fc39.copr6614518.noarch.rpm: Already downloaded
[SKIPPED] R-CRAN-magrittr-2.0.3-1.fc39.copr6279321.x86_64.rpm: Already downloaded
[SKIPPED] R-CRAN-mgcv-1.9.1-1.fc39.copr6775870.x86_64.rpm: Already downloaded  
[SKIPPED] R-CRAN-munsell-0.5.1-1.fc39.copr7306785.noarch.rpm: Already downloaded
[SKIPPED] R-CRAN-nlme-3.1.166-1.fc39.copr7936970.x86_64.rpm: Already downloaded
[SKIPPED] R-CRAN-pillar-1.9.0-1.fc39.copr6286818.noarch.rpm: Already downloaded
[SKIPPED] R-CRAN-pkgconfig-2.0.3-3.fc39.copr6279322.noarch.rpm: Already downloaded
[SKIPPED] R-CRAN-rlang-1.1.4-1.fc39.copr7531082.x86_64.rpm: Already downloaded 
[SKIPPED] R-CRAN-scales-1.3.0-1.fc39.copr6704012.noarch.rpm: Already downloaded
[SKIPPED] R-CRAN-tibble-3.2.1-1.fc39.copr6288598.x86_64.rpm: Already downloaded
[SKIPPED] R-CRAN-utf8-1.2.4-1.fc39.copr6555966.x86_64.rpm: Already downloaded  
[SKIPPED] R-CRAN-vctrs-0.6.5-1.fc39.copr6715464.x86_64.rpm: Already downloaded 
[SKIPPED] R-CRAN-viridisLite-0.4.2-1.fc39.copr6279312.noarch.rpm: Already downloaded
[SKIPPED] R-CRAN-withr-3.0.2-1.fc39.copr8184963.noarch.rpm: Already downloaded 
[SKIPPED] R-rpm-macros-1.2.1-7.fc39.noarch.rpm: Already downloaded             
[SKIPPED] abattis-cantarell-vf-fonts-0.301-10.fc39.noarch.rpm: Already downloaded
[SKIPPED] avahi-libs-0.8-24.fc39.x86_64.rpm: Already downloaded                
[SKIPPED] brotli-1.1.0-1.fc39.x86_64.rpm: Already downloaded                   
[SKIPPED] brotli-devel-1.1.0-1.fc39.x86_64.rpm: Already downloaded             
[SKIPPED] bzip2-devel-1.0.8-16.fc39.x86_64.rpm: Already downloaded             
[SKIPPED] cairo-1.18.0-1.fc39.x86_64.rpm: Already downloaded                   
[SKIPPED] cmake-filesystem-3.27.7-1.fc39.x86_64.rpm: Already downloaded        
[SKIPPED] copy-jdk-configs-4.1-3.fc39.noarch.rpm: Already downloaded           
[SKIPPED] dbus-libs-1.14.10-1.fc39.x86_64.rpm: Already downloaded              
[SKIPPED] default-fonts-core-sans-4.0-9.fc39.noarch.rpm: Already downloaded    
[SKIPPED] desktop-file-utils-0.26-9.fc39.x86_64.rpm: Already downloaded        
[SKIPPED] fonts-filesystem-2.0.5-12.fc39.noarch.rpm: Already downloaded        
[SKIPPED] freetype-2.13.1-2.fc39.x86_64.rpm: Already downloaded                
[SKIPPED] freetype-devel-2.13.1-2.fc39.x86_64.rpm: Already downloaded          
[SKIPPED] fribidi-1.0.13-2.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] gc-8.2.2-4.fc39.x86_64.rpm: Already downloaded                       
[SKIPPED] gettext-0.22-2.fc39.x86_64.rpm: Already downloaded                   
[SKIPPED] gettext-envsubst-0.22-2.fc39.x86_64.rpm: Already downloaded          
[SKIPPED] gettext-libs-0.22-2.fc39.x86_64.rpm: Already downloaded              
[SKIPPED] gettext-runtime-0.22-2.fc39.x86_64.rpm: Already downloaded           
[SKIPPED] graphite2-1.3.14-12.fc39.x86_64.rpm: Already downloaded              
[SKIPPED] graphite2-devel-1.3.14-12.fc39.x86_64.rpm: Already downloaded        
[SKIPPED] guile22-2.2.7-9.fc39.x86_64.rpm: Already downloaded                  
[SKIPPED] harfbuzz-8.2.1-2.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] harfbuzz-devel-8.2.1-2.fc39.x86_64.rpm: Already downloaded           
[SKIPPED] harfbuzz-icu-8.2.1-2.fc39.x86_64.rpm: Already downloaded             
[SKIPPED] javapackages-filesystem-6.1.0-10.fc39.noarch.rpm: Already downloaded 
[SKIPPED] jbigkit-libs-2.1-26.fc39.x86_64.rpm: Already downloaded              
[SKIPPED] libICE-1.0.10-11.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] libSM-1.2.3-13.fc39.x86_64.rpm: Already downloaded                   
[SKIPPED] libXau-1.0.11-3.fc39.x86_64.rpm: Already downloaded                  
[SKIPPED] libXau-devel-1.0.11-3.fc39.x86_64.rpm: Already downloaded            
[SKIPPED] libXcomposite-0.4.5-10.fc39.x86_64.rpm: Already downloaded           
[SKIPPED] libXext-1.3.5-3.fc39.x86_64.rpm: Already downloaded                  
[SKIPPED] libXft-2.3.8-3.fc39.x86_64.rpm: Already downloaded                   
[SKIPPED] libXft-devel-2.3.8-3.fc39.x86_64.rpm: Already downloaded             
[SKIPPED] libXi-1.8.1-2.fc39.x86_64.rpm: Already downloaded                    
[SKIPPED] libXmu-1.1.4-3.fc39.x86_64.rpm: Already downloaded                   
[SKIPPED] libXrender-0.9.11-3.fc39.x86_64.rpm: Already downloaded              
[SKIPPED] libXrender-devel-0.9.11-3.fc39.x86_64.rpm: Already downloaded        
[SKIPPED] libXt-1.2.1-5.fc39.x86_64.rpm: Already downloaded                    
[SKIPPED] libXtst-1.2.4-3.fc39.x86_64.rpm: Already downloaded                  
[SKIPPED] libb2-0.98.1-9.fc39.x86_64.rpm: Already downloaded                   
[SKIPPED] libdatrie-0.2.13-7.fc39.x86_64.rpm: Already downloaded               
[SKIPPED] libffi-devel-3.4.4-4.fc39.x86_64.rpm: Already downloaded             
[SKIPPED] libfontenc-1.1.6-3.fc39.x86_64.rpm: Already downloaded               
[SKIPPED] libicu-73.2-2.fc39.x86_64.rpm: Already downloaded                    
[SKIPPED] libicu-devel-73.2-2.fc39.x86_64.rpm: Already downloaded              
[SKIPPED] libjpeg-turbo-2.1.4-3.fc39.x86_64.rpm: Already downloaded            
[SKIPPED] liblerc-4.0.0-4.fc39.x86_64.rpm: Already downloaded                  
[SKIPPED] libmpc-1.3.1-3.fc39.x86_64.rpm: Already downloaded                   
[SKIPPED] libpng-1.6.37-15.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] libpng-devel-1.6.37-15.fc39.x86_64.rpm: Already downloaded           
[SKIPPED] libselinux-devel-3.5-5.fc39.x86_64.rpm: Already downloaded           
[SKIPPED] libsepol-devel-3.5-2.fc39.x86_64.rpm: Already downloaded             
[SKIPPED] libthai-0.1.29-6.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] libtiff-4.4.0-8.fc39.x86_64.rpm: Already downloaded                  
[SKIPPED] libwebp-1.3.2-2.fc39.x86_64.rpm: Already downloaded                  
[SKIPPED] libxcb-1.13.1-12.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] libxcb-devel-1.13.1-12.fc39.x86_64.rpm: Already downloaded           
[SKIPPED] libxcrypt-devel-4.4.36-2.fc39.x86_64.rpm: Already downloaded         
[SKIPPED] libxml2-devel-2.10.4-3.fc39.x86_64.rpm: Already downloaded           
[SKIPPED] lua-5.4.6-3.fc39.x86_64.rpm: Already downloaded                      
[SKIPPED] lua-posix-36.2.1-3.fc39.x86_64.rpm: Already downloaded               
[SKIPPED] make-4.4.1-2.fc39.x86_64.rpm: Already downloaded                     
[SKIPPED] mkfontscale-1.2.2-4.fc39.x86_64.rpm: Already downloaded              
[SKIPPED] mpdecimal-2.5.1-7.fc39.x86_64.rpm: Already downloaded                
[SKIPPED] nettle-3.9.1-2.fc39.x86_64.rpm: Already downloaded                   
[SKIPPED] openblas-0.3.21-6.fc39.x86_64.rpm: Already downloaded                
[SKIPPED] openblas-openmp-0.3.21-6.fc39.x86_64.rpm: Already downloaded         
[SKIPPED] openblas-openmp64-0.3.21-6.fc39.x86_64.rpm: Already downloaded       
[SKIPPED] pango-1.51.0-1.fc39.x86_64.rpm: Already downloaded                   
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[SKIPPED] pcre2-utf16-10.42-1.fc39.2.x86_64.rpm: Already downloaded            
[SKIPPED] pcre2-utf32-10.42-1.fc39.2.x86_64.rpm: Already downloaded            
[SKIPPED] pixman-0.42.2-2.fc39.x86_64.rpm: Already downloaded                  
[SKIPPED] tcl-8.6.12-5.fc39.x86_64.rpm: Already downloaded                     
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[SKIPPED] tk-8.6.12-5.fc39.x86_64.rpm: Already downloaded                      
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[SKIPPED] tre-0.8.0-41.20140228gitc2f5d13.fc39.x86_64.rpm: Already downloaded  
[SKIPPED] tre-common-0.8.0-41.20140228gitc2f5d13.fc39.noarch.rpm: Already downloaded
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[SKIPPED] ttmkfdir-3.0.9-69.fc39.x86_64.rpm: Already downloaded                
[SKIPPED] xdg-utils-1.1.3-15.fc39.noarch.rpm: Already downloaded               
[SKIPPED] xml-common-0.6.3-61.fc39.noarch.rpm: Already downloaded              
[SKIPPED] xorg-x11-fonts-Type1-7.5-36.fc39.noarch.rpm: Already downloaded      
[SKIPPED] xorg-x11-proto-devel-2023.2-2.fc39.noarch.rpm: Already downloaded    
[SKIPPED] xz-devel-5.4.4-1.fc39.x86_64.rpm: Already downloaded                 
[SKIPPED] zlib-devel-1.2.13-4.fc39.x86_64.rpm: Already downloaded              
[SKIPPED] R-core-4.3.3-2.fc39.x86_64.rpm: Already downloaded                   
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[SKIPPED] R-devel-4.3.3-2.fc39.x86_64.rpm: Already downloaded                  
[SKIPPED] R-java-4.3.3-2.fc39.x86_64.rpm: Already downloaded                   
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  Verifying        : R-devel-4.3.3-2.fc39.x86_64                        150/211 
  Verifying        : R-java-4.3.3-2.fc39.x86_64                         151/211 
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  Verifying        : R-littler-0.3.19-1.fc39.x86_64                     153/211 
  Verifying        : alsa-lib-1.2.12-1.fc39.x86_64                      154/211 
  Verifying        : annobin-docs-12.60-1.fc39.noarch                   155/211 
  Verifying        : annobin-plugin-gcc-12.60-1.fc39.x86_64             156/211 
  Verifying        : cpp-13.3.1-3.fc39.x86_64                           157/211 
  Verifying        : crypto-policies-scripts-20231204-1.git1e3a2e4.fc   158/211 
  Verifying        : cups-libs-1:2.4.11-1.fc39.x86_64                   159/211 
  Verifying        : emacs-filesystem-1:29.4-2.fc39.noarch              160/211 
  Verifying        : expat-2.6.3-1.fc39.x86_64                          161/211 
  Verifying        : flexiblas-3.4.4-1.fc39.x86_64                      162/211 
  Verifying        : flexiblas-devel-3.4.4-1.fc39.x86_64                163/211 
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  Verifying        : java-17-openjdk-1:17.0.12.0.7-2.fc39.x86_64        181/211 
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  Verifying        : tzdata-2024a-2.fc39.noarch                         210/211 
  Verifying        : tzdata-java-2024a-2.fc39.noarch                    211/211 
Installed products updated.

Installed:
  R-CRAN-BH-1.84.0.0-1.fc39.copr6880886.noarch                                  
  R-CRAN-MASS-7.3.60.0.1-1.fc39.copr6895092.x86_64                              
  R-CRAN-Matrix-1.6.5-1.fc39.copr6886765.x86_64                                 
  R-CRAN-PreciseSums-0.7-1.fc39.copr8029450.x86_64                              
  R-CRAN-R6-2.5.1-1.fc39.copr6279323.noarch                                     
  R-CRAN-RApiSerialize-0.1.4-1.fc39.copr8089098.x86_64                          
  R-CRAN-RColorBrewer-1.1.3-1.fc39.copr6279333.noarch                           
  R-CRAN-Rcpp-1.0.13-1.fc39.copr7745410.x86_64                                  
  R-CRAN-RcppArmadillo-14.0.2.1-1.fc39.copr8016517.x86_64                       
  R-CRAN-RcppEigen-0.3.4.0.2-1.fc39.copr8100507.x86_64                          
  R-CRAN-RcppParallel-5.1.9-1.fc39.copr7936852.x86_64                           
  R-CRAN-StanHeaders-2.32.10-1.fc39.copr7736967.x86_64                          
  R-CRAN-backports-1.5.0-1.fc39.copr7483453.x86_64                              
  R-CRAN-cachem-1.1.0-1.fc39.copr7452047.x86_64                                 
  R-CRAN-checkmate-2.3.2-1.fc39.copr7803006.x86_64                              
  R-CRAN-cli-3.6.3-1.fc39.copr7649835.x86_64                                    
  R-CRAN-colorspace-2.1.1-1.fc39.copr7795131.x86_64                             
  R-CRAN-crayon-1.5.3-1.fc39.copr7633037.noarch                                 
  R-CRAN-data.table-1.16.2-1.fc39.copr8128145.x86_64                            
  R-CRAN-digest-0.6.37-1.fc39.copr7936834.x86_64                                
  R-CRAN-dparser-1.3.1.13-1.fc39.copr8168029.x86_64                             
  R-CRAN-fansi-1.0.6-1.fc39.copr6735917.x86_64                                  
  R-CRAN-farver-2.1.2-1.fc39.copr7442181.x86_64                                 
  R-CRAN-fastmap-1.2.0-1.fc39.copr7447859.x86_64                                
  R-CRAN-ggplot2-3.5.1-1.fc39.copr7342639.noarch                                
  R-CRAN-glue-1.8.0-1.fc39.copr8094211.x86_64                                   
  R-CRAN-gtable-0.3.6-1.fc39.copr8178682.noarch                                 
  R-CRAN-inline-0.3.19-1.fc39.copr6279314.noarch                                
  R-CRAN-isoband-0.2.7-1.fc39.copr6280488.x86_64                                
  R-CRAN-labeling-0.4.3-1.fc39.copr6354313.noarch                               
  R-CRAN-lattice-0.22.6-1.fc39.copr7307082.x86_64                               
  R-CRAN-lazyeval-0.2.2-3.fc39.copr6279311.x86_64                               
  R-CRAN-lifecycle-1.0.4-1.fc39.copr6614518.noarch                              
  R-CRAN-lotri-1.0.0-1.fc39.copr8032936.x86_64                                  
  R-CRAN-magrittr-2.0.3-1.fc39.copr6279321.x86_64                               
  R-CRAN-memoise-2.0.1-1.fc39.copr6285223.noarch                                
  R-CRAN-mgcv-1.9.1-1.fc39.copr6775870.x86_64                                   
  R-CRAN-munsell-0.5.1-1.fc39.copr7306785.noarch                                
  R-CRAN-nlme-3.1.166-1.fc39.copr7936970.x86_64                                 
  R-CRAN-pillar-1.9.0-1.fc39.copr6286818.noarch                                 
  R-CRAN-pkgconfig-2.0.3-3.fc39.copr6279322.noarch                              
  R-CRAN-qs-0.27.2-1.fc39.copr8099906.x86_64                                    
  R-CRAN-rex-1.2.1-1.fc39.copr8100517.noarch                                    
  R-CRAN-rlang-1.1.4-1.fc39.copr7531082.x86_64                                  
  R-CRAN-rxode2ll-2.0.11-1.fc39.copr7480751.x86_64                              
  R-CRAN-scales-1.3.0-1.fc39.copr6704012.noarch                                 
  R-CRAN-sitmo-2.0.2-1.fc39.copr6282905.x86_64                                  
  R-CRAN-stringfish-0.16.0-1.fc39.copr6704019.x86_64                            
  R-CRAN-sys-3.4.3-1.fc39.copr8109592.x86_64                                    
  R-CRAN-tibble-3.2.1-1.fc39.copr6288598.x86_64                                 
  R-CRAN-utf8-1.2.4-1.fc39.copr6555966.x86_64                                   
  R-CRAN-vctrs-0.6.5-1.fc39.copr6715464.x86_64                                  
  R-CRAN-viridisLite-0.4.2-1.fc39.copr6279312.noarch                            
  R-CRAN-withr-3.0.2-1.fc39.copr8184963.noarch                                  
  R-core-4.3.3-2.fc39.x86_64                                                    
  R-core-devel-4.3.3-2.fc39.x86_64                                              
  R-devel-4.3.3-2.fc39.x86_64                                                   
  R-java-4.3.3-2.fc39.x86_64                                                    
  R-java-devel-4.3.3-2.fc39.x86_64                                              
  R-littler-0.3.19-1.fc39.x86_64                                                
  R-rpm-macros-1.2.1-7.fc39.noarch                                              
  abattis-cantarell-vf-fonts-0.301-10.fc39.noarch                               
  alsa-lib-1.2.12-1.fc39.x86_64                                                 
  annobin-docs-12.60-1.fc39.noarch                                              
  annobin-plugin-gcc-12.60-1.fc39.x86_64                                        
  avahi-libs-0.8-24.fc39.x86_64                                                 
  brotli-1.1.0-1.fc39.x86_64                                                    
  brotli-devel-1.1.0-1.fc39.x86_64                                              
  bzip2-devel-1.0.8-16.fc39.x86_64                                              
  cairo-1.18.0-1.fc39.x86_64                                                    
  cmake-filesystem-3.27.7-1.fc39.x86_64                                         
  copy-jdk-configs-4.1-3.fc39.noarch                                            
  cpp-13.3.1-3.fc39.x86_64                                                      
  crypto-policies-scripts-20231204-1.git1e3a2e4.fc39.noarch                     
  cups-libs-1:2.4.11-1.fc39.x86_64                                              
  dbus-libs-1:1.14.10-1.fc39.x86_64                                             
  default-fonts-core-sans-4.0-9.fc39.noarch                                     
  desktop-file-utils-0.26-9.fc39.x86_64                                         
  emacs-filesystem-1:29.4-2.fc39.noarch                                         
  expat-2.6.3-1.fc39.x86_64                                                     
  flexiblas-3.4.4-1.fc39.x86_64                                                 
  flexiblas-devel-3.4.4-1.fc39.x86_64                                           
  flexiblas-netlib-3.4.4-1.fc39.x86_64                                          
  flexiblas-netlib64-3.4.4-1.fc39.x86_64                                        
  flexiblas-openblas-openmp-3.4.4-1.fc39.x86_64                                 
  flexiblas-openblas-openmp64-3.4.4-1.fc39.x86_64                               
  fontconfig-2.14.2-6.fc39.x86_64                                               
  fontconfig-devel-2.14.2-6.fc39.x86_64                                         
  fonts-filesystem-1:2.0.5-12.fc39.noarch                                       
  freetype-2.13.1-2.fc39.x86_64                                                 
  freetype-devel-2.13.1-2.fc39.x86_64                                           
  fribidi-1.0.13-2.fc39.x86_64                                                  
  gc-8.2.2-4.fc39.x86_64                                                        
  gcc-13.3.1-3.fc39.x86_64                                                      
  gcc-c++-13.3.1-3.fc39.x86_64                                                  
  gcc-gfortran-13.3.1-3.fc39.x86_64                                             
  gcc-plugin-annobin-13.3.1-3.fc39.x86_64                                       
  gettext-0.22-2.fc39.x86_64                                                    
  gettext-envsubst-0.22-2.fc39.x86_64                                           
  gettext-libs-0.22-2.fc39.x86_64                                               
  gettext-runtime-0.22-2.fc39.x86_64                                            
  glib2-2.78.6-1.fc39.x86_64                                                    
  glib2-devel-2.78.6-1.fc39.x86_64                                              
  glibc-devel-2.38-19.fc39.x86_64                                               
  glibc-headers-x86-2.38-19.fc39.noarch                                         
  gnutls-3.8.6-1.fc39.x86_64                                                    
  google-noto-fonts-common-20240101-1.fc39.noarch                               
  google-noto-sans-vf-fonts-20240101-1.fc39.noarch                              
  graphite2-1.3.14-12.fc39.x86_64                                               
  graphite2-devel-1.3.14-12.fc39.x86_64                                         
  guile22-2.2.7-9.fc39.x86_64                                                   
  harfbuzz-8.2.1-2.fc39.x86_64                                                  
  harfbuzz-devel-8.2.1-2.fc39.x86_64                                            
  harfbuzz-icu-8.2.1-2.fc39.x86_64                                              
  java-17-openjdk-1:17.0.12.0.7-2.fc39.x86_64                                   
  java-17-openjdk-devel-1:17.0.12.0.7-2.fc39.x86_64                             
  java-17-openjdk-headless-1:17.0.12.0.7-2.fc39.x86_64                          
  javapackages-filesystem-6.1.0-10.fc39.noarch                                  
  jbigkit-libs-2.1-26.fc39.x86_64                                               
  kernel-headers-6.11.3-100.fc39.x86_64                                         
  libICE-1.0.10-11.fc39.x86_64                                                  
  libRmath-4.3.3-2.fc39.x86_64                                                  
  libRmath-devel-4.3.3-2.fc39.x86_64                                            
  libSM-1.2.3-13.fc39.x86_64                                                    
  libX11-1.8.9-1.fc39.x86_64                                                    
  libX11-common-1.8.9-1.fc39.noarch                                             
  libX11-devel-1.8.9-1.fc39.x86_64                                              
  libX11-xcb-1.8.9-1.fc39.x86_64                                                
  libXau-1.0.11-3.fc39.x86_64                                                   
  libXau-devel-1.0.11-3.fc39.x86_64                                             
  libXcomposite-0.4.5-10.fc39.x86_64                                            
  libXext-1.3.5-3.fc39.x86_64                                                   
  libXft-2.3.8-3.fc39.x86_64                                                    
  libXft-devel-2.3.8-3.fc39.x86_64                                              
  libXi-1.8.1-2.fc39.x86_64                                                     
  libXmu-1.1.4-3.fc39.x86_64                                                    
  libXrender-0.9.11-3.fc39.x86_64                                               
  libXrender-devel-0.9.11-3.fc39.x86_64                                         
  libXt-1.2.1-5.fc39.x86_64                                                     
  libXtst-1.2.4-3.fc39.x86_64                                                   
  libb2-0.98.1-9.fc39.x86_64                                                    
  libblkid-devel-2.39.4-1.fc39.x86_64                                           
  libdatrie-0.2.13-7.fc39.x86_64                                                
  libffi-devel-3.4.4-4.fc39.x86_64                                              
  libfontenc-1.1.6-3.fc39.x86_64                                                
  libgfortran-13.3.1-3.fc39.x86_64                                              
  libicu-73.2-2.fc39.x86_64                                                     
  libicu-devel-73.2-2.fc39.x86_64                                               
  libjpeg-turbo-2.1.4-3.fc39.x86_64                                             
  liblerc-4.0.0-4.fc39.x86_64                                                   
  libmount-devel-2.39.4-1.fc39.x86_64                                           
  libmpc-1.3.1-3.fc39.x86_64                                                    
  libpng-2:1.6.37-15.fc39.x86_64                                                
  libpng-devel-2:1.6.37-15.fc39.x86_64                                          
  libquadmath-13.3.1-3.fc39.x86_64                                              
  libquadmath-devel-13.3.1-3.fc39.x86_64                                        
  libselinux-devel-3.5-5.fc39.x86_64                                            
  libsepol-devel-3.5-2.fc39.x86_64                                              
  libstdc++-devel-13.3.1-3.fc39.x86_64                                          
  libthai-0.1.29-6.fc39.x86_64                                                  
  libtiff-4.4.0-8.fc39.x86_64                                                   
  libtirpc-devel-1.3.5-0.fc39.x86_64                                            
  libwebp-1.3.2-2.fc39.x86_64                                                   
  libxcb-1.13.1-12.fc39.x86_64                                                  
  libxcb-devel-1.13.1-12.fc39.x86_64                                            
  libxcrypt-devel-4.4.36-2.fc39.x86_64                                          
  libxml2-devel-2.10.4-3.fc39.x86_64                                            
  lksctp-tools-1.0.20-1.fc39.x86_64                                             
  lua-5.4.6-3.fc39.x86_64                                                       
  lua-posix-36.2.1-3.fc39.x86_64                                                
  make-1:4.4.1-2.fc39.x86_64                                                    
  mkfontscale-1.2.2-4.fc39.x86_64                                               
  mpdecimal-2.5.1-7.fc39.x86_64                                                 
  nettle-3.9.1-2.fc39.x86_64                                                    
  nspr-4.35.0-23.fc39.x86_64                                                    
  nss-3.104.0-1.fc39.x86_64                                                     
  nss-softokn-3.104.0-1.fc39.x86_64                                             
  nss-softokn-freebl-3.104.0-1.fc39.x86_64                                      
  nss-sysinit-3.104.0-1.fc39.x86_64                                             
  nss-util-3.104.0-1.fc39.x86_64                                                
  openblas-0.3.21-6.fc39.x86_64                                                 
  openblas-openmp-0.3.21-6.fc39.x86_64                                          
  openblas-openmp64-0.3.21-6.fc39.x86_64                                        
  pango-1.51.0-1.fc39.x86_64                                                    
  pcre2-devel-10.42-1.fc39.2.x86_64                                             
  pcre2-utf16-10.42-1.fc39.2.x86_64                                             
  pcre2-utf32-10.42-1.fc39.2.x86_64                                             
  pixman-0.42.2-2.fc39.x86_64                                                   
  python-pip-wheel-23.2.1-2.fc39.noarch                                         
  python3-3.12.7-1.fc39.x86_64                                                  
  python3-libs-3.12.7-1.fc39.x86_64                                             
  python3-setuptools-67.7.2-8.fc39.noarch                                       
  sysprof-capture-devel-45.1-1.fc39.x86_64                                      
  tbb-2020.3-20.fc39.x86_64                                                     
  tbb-devel-2020.3-20.fc39.x86_64                                               
  tcl-1:8.6.12-5.fc39.x86_64                                                    
  tcl-devel-1:8.6.12-5.fc39.x86_64                                              
  tk-1:8.6.12-5.fc39.x86_64                                                     
  tk-devel-1:8.6.12-5.fc39.x86_64                                               
  tre-0.8.0-41.20140228gitc2f5d13.fc39.x86_64                                   
  tre-common-0.8.0-41.20140228gitc2f5d13.fc39.noarch                            
  tre-devel-0.8.0-41.20140228gitc2f5d13.fc39.x86_64                             
  ttmkfdir-3.0.9-69.fc39.x86_64                                                 
  tzdata-2024a-2.fc39.noarch                                                    
  tzdata-java-2024a-2.fc39.noarch                                               
  xdg-utils-1.1.3-15.fc39.noarch                                                
  xml-common-0.6.3-61.fc39.noarch                                               
  xorg-x11-fonts-Type1-7.5-36.fc39.noarch                                       
  xorg-x11-proto-devel-2023.2-2.fc39.noarch                                     
  xz-devel-5.4.4-1.fc39.x86_64                                                  
  zlib-devel-1.2.13-4.fc39.x86_64                                               

Complete!
Finish: build setup for R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.src.rpm
Start: rpmbuild R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.src.rpm
warning: source_date_epoch_from_changelog set but %changelog is missing
Building target platforms: x86_64
Building for target x86_64
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.odJmIq
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf rxode2
+ /usr/bin/mkdir -p rxode2
+ cd rxode2
+ /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/rxode2_3.0.2.tar.gz
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ rm -rf /builddir/build/BUILD/rxode2-SPECPARTS
+ /usr/bin/mkdir -p /builddir/build/BUILD/rxode2-SPECPARTS
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ find -type f -executable -exec grep -Iq . '{}' ';' -exec sed -i -e '$a\' '{}' ';'
+ '[' -d rxode2/src ']'
+ find rxode2/src -type f -exec sed -i s@/usr/bin/strip@/usr/bin/true@g '{}' ';'
+ '[' -d rxode2/src ']'
+ find rxode2/src/Makevars.in -type f -exec sed -i s@-g0@@g '{}' ';'
+ find -type f -executable -exec sed -Ei 's@#!( )*/usr/local/bin@#!/usr/bin@g' '{}' ';'
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.ljL0f4
+ umask 022
+ cd /builddir/build/BUILD
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ 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  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd rxode2
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.9sSsBi
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64
++ dirname /builddir/build/BUILDROOT/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ 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  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd rxode2
+ mkdir -p /builddir/build/BUILDROOT/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64/usr/local/lib/R/library
+ /usr/bin/R CMD INSTALL -l /builddir/build/BUILDROOT/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64/usr/local/lib/R/library rxode2
* installing *source* package ‘rxode2’ ...
** package ‘rxode2’ successfully unpacked and MD5 sums checked
** using staged installation

R version 4.3.3 (2024-02-29) -- "Angel Food Cake"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-redhat-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> ## This is only for rxode2
> for (f in c("inst/include/rxode2_RcppExports.h", "src/RcppExports.cpp")) {
+   l <- readLines(f)
+   w <- which(regexpr("^[#]include <RcppArmadillo.h>", l) != -1)
+   if (length(w) > 0) {
+     l <- l[-w]
+   }
+   w <- which(regexpr("^[#]define R_STRICT_HEADERS", l) != -1)
+   if (length(w) > 0) {
+     l <- l[-w]
+   }
+   l <- c("#define R_STRICT_HEADERS",
+          "#include <RcppArmadillo.h>",
+          l)
+   file.out <- file(f, "wb")
+   writeLines(l, file.out)
+   close(file.out)
+ }
> 
> l <- readLines("R/RcppExports.R")
> w <- which(regexpr("# Register entry points", l, fixed=TRUE) != -1)
> if (length(w) >= 1) {
+   w <- w[1]
+   l <- l[seq(1, w-1)]
+   RcppExports.R <- file("R/RcppExports.R", "wb")
+   writeLines(l, RcppExports.R)
+   close(RcppExports.R)
+ }
> 
> .in <- suppressWarnings(readLines("src/Makevars.in"))
> .in <- gsub("@ARMA@", file.path(find.package("RcppArmadillo"),"include"), .in)
> .in <- gsub("@BH@", file.path(find.package("BH"),"include"), .in)
> .in <- gsub("@RCPP@", file.path(find.package("Rcpp"),"include"), .in)
> .in <- gsub("@EG@", file.path(find.package("RcppEigen"),"include"), .in)
> 
> .in <- gsub("@SL@", paste(capture.output(StanHeaders:::LdFlags()), capture.output(RcppParallel:::RcppParallelLibs())), #nolint
+             .in)
> 
> 
> .badStan <- ""
> .in <- gsub("@SH@", gsub("-I", "-@ISYSTEM@",
+                          paste(capture.output(StanHeaders:::CxxFlags()), # nolint
+                                capture.output(RcppParallel:::CxxFlags()), # nolint
+                                paste0("-@ISYSTEM@'", system.file('include', 'src', package = 'StanHeaders', mustWork = TRUE), "'"),
+                                .badStan)),
+             .in)
> 
> 
> 
> 
> if (.Platform$OS.type == "windows" && !file.exists("src/Makevars.win")) {
+   .in <- gsub("@CXX14STD@", "-std=c++1y", .in)
+   file.out <- file("src/Makevars.win", "wb")
+   writeLines(gsub("@ISYSTEM@", "I", .in),
+              file.out)
+   close(file.out)
+ } else {
+   .in <- gsub("@CXX14STD@", "-std=gnu++14", .in)
+   file.out <- file("src/Makevars", "wb")
+   writeLines(gsub("@ISYSTEM@", "isystem", .in),
+              file.out)
+   close(file.out)
+ }
> 
> if (file.exists("man/reexports.Rd")) {
+   l <- readLines("man/reexports.Rd")
+   if (!any(regexpr("[\\]value", l) != -1)) {
+     l <- c(l, "\\value{ Inherited from parent routine }")
+     file.out <- file("man/reexports.Rd", "wb")
+     writeLines(l, file.out)
+     close(file.out)
+   }
+ }
> 
> 
> unlink("R/rxode2_md5.R")
> 
> cpp <- list.files("src", pattern = ".(c|h|cpp|f)$")
> include <- list.files("inst/include")
> #Rfiles <- list.files("R/", pattern = ".R")
> 
> cmd <- file.path(R.home("bin"), "R")
> args <- c("CMD", "config")
> 
> md5 <- digest::digest(c(lapply(c(paste0("src/", cpp),
+                                  paste0("inst/include/", include)#,
+                                  #paste0("R/", Rfiles)
+                                  ), digest::digest, file = TRUE),
+                         ## vapply(c("BLAS_LIBS", "CC",  "CFLAGS", "CPICFLAGS",
+                         ##          "CXX", "CXXFLAGS", "CXXPICFLAGS",
+                         ##          "CXX11", "CXX11STD", "CXX11FLAGS", "CXX11PICFLAGS",
+                         ##          "CXX14", "CXX14STD", "CXX14FLAGS", "CXX14PICFLAGS",
+                         ##          "CXX17", "CXX17STD", "CXX17FLAGS", "CXX17PICFLAGS",
+                         ##          "CXX20", "CXX20STD", "CXX20FLAGS", "CXX20PICFLAGS",
+                         ##          "FC", "FFLAGS", "FCFLAGS",  "FPICFLAGS"),
+                         ##        function(cfg) {
+                         ##          rawToChar(sys::exec_internal(cmd, c(args, cfg))$stdout)
+                         ##        }, character(1)
+                         ##       ),
+                         ""
+                         ))
> unlink("R/rxode2_md5.R")
> md5file <- file("R/rxode2_md5.R", "wb")
> writeLines(sprintf("rxode2.md5 <- \"%s\"\n", md5), md5file)
> close(md5file)
> 
> l <- readLines("DESCRIPTION")
> w <- which(regexpr("Version[:] *(.*)$", l) != -1)
> v <- gsub("Version[:] *(.*)$", "\\1", l[w])
> 
> unlink("inst/include/rxode2parseVer.h")
> ode.h <- file("inst/include/rxode2parseVer.h", "wb")
> writeLines(c(sprintf("#define __VER_md5__ \"%s\"", md5),
+              "#define __VER_repo__ \"https://github.com/nlmixr2/rxode2\"",
+              sprintf("#define __VER_ver__ \"%s\"", v)),
+            ode.h)
> close(ode.h)
> 
> unlink("src/sbuf.c")
> l <- readLines("inst/include/sbuf.c")
> sbuf.c <- file("src/sbuf.c", "wb")
> writeLines(l, sbuf.c)
> close(sbuf.c)
> 
> 
> unlink("src/codegen2.h")
> l <- readLines("inst/include/rxode2_model_shared.c")
> 
> l <- l[l != ""]
> l <- gsub(" *= *NULL;", "=NULL;", l)
> 
> def <- l
> w <- which(regexpr("double _prod", def) != -1) - 1
> def <- def[1:w]
> def <- gsub("=NULL", "", def)
> def <- gsub("[^ ]* *[*]?([^;]*);", "\\1", def)
> 
> def <- unique(c(def, c("_sum", "_udf", "_sign", "_prod", "_max", "_min", "_transit4P", "_transit3P", "_assignFuns0", "_assignFuns", "_getRxSolve_", "_solveData", "_rxord", "__assignFuns2")))
> 
> w0 <- which(grepl("double +_prod", l))[1]
> r <- 1:(w0 - 1)
> l0 <- l[r]
> l <- l[-r]
> 
> 
> w1 <- which(regexpr("dynamic start", l) != -1)
> l1 <- l[1:w1]
> 
> 
> 
> w2 <- which(regexpr("dynamic stop", l) != -1)
> l2 <- l[seq(w2, length(l))]
> 
> w3 <- which(regexpr("assign start", l2) != -1)
> 
> l3 <- l2[seq(w3, length(l2))]
> l2 <- l2[1:w3]
> 
> w4 <- which(regexpr("assign stop", l3) != -1)
> l3 <- l3[seq(w4, length(l3))]
> 
> dfP <- l[seq(w1+1, w2-1)]
> 
> dfP <- dfP[regexpr("^ *$", dfP)==-1]
> df <- setNames(do.call("rbind",lapply(seq_along(dfP),
+                                       function(i) {
+                                         .r <- sub("^ *", "", dfP[[i]])
+                                         .r <- sub("^([^ ]*) *= *[(]", "\\1,", .r)
+                                         .r <- sub("^([^ ]*) *[)] *R_GetCCallable *[(] *\"", "\\1,", .r, perl=TRUE)
+                                         .r <- sub("^([^ ]*) *\" *, *\"", "\\1,", .r, perl=TRUE)
+                                         .r <- sub("^([^ ]*)\" *[)] *; *", "\\1",.r, perl=TRUE)
+                                         data.frame(t(strsplit(.r, ",")[[1]]),stringsAsFactors = FALSE)
+                                       })), c("fun", "type", "package", "packageFun"))
> 
> df$rxFun <- df$fun
> df$argMax <- df$argMin <- NA_integer_
> df$threadSafe <- 1L
> df <- df[,c("rxFun", "fun", "type", "package", "packageFun", "argMin", "argMax", "threadSafe")]
> df$rxFun <- gsub("_llik", "llik", df$rxFun)
> 
> def <- def[!(def %in% df$rxFun)]
> def <- def[!(def %in% df$fun)]
> 
> .parseEnv <- new.env(parent=emptyenv())
> source("R/parseFuns.R")
> 
> df$argMin <- vapply(df$rxFun, function(f) {
+   .n <- .parseEnv$.parseNum[f]
+   if (is.na(.n)) return(NA_integer_)
+   .n <-setNames(.n, NULL)
+   as.integer(.n)
+ }, integer(1), USE.NAMES=TRUE)
> 
> df$argMax <- df$argMin
> 
> dfStr <- deparse(df)
> dfStr[1] <- paste(".parseEnv$.rxode2parseDf <- ", dfStr[1])
> 
> dfIni.R <- file("R/dfIni.R", "wb")
> writeLines(dfStr,
+            dfIni.R)
> close(dfIni.R)
> 
> ## deparse1 came from R 4.0, use deparse2
> deparse2 <- function(expr, collapse = " ", width.cutoff = 500L, ...) {
+   paste(deparse(expr, width.cutoff, ...), collapse = collapse)
+ }
> 
> final <- c("#include <time.h>",
+            "#include <stdlib.h>",
+            "unsigned long int __timeId=0;",
+            "void writeHeader(const char *md5, const char *extra) {",
+            paste0("sAppend(&sbOut, \"#define ", def, " _rx%s%s%ld\\n\", extra, md5, __timeId++);"),
+            "}",
+            "void writeBody0(void) {",
+            paste0("sAppendN(&sbOut, ", vapply(paste0(l0, "\n"), deparse2, character(1)), ", ", nchar(l0) + 1, ");"),
+            "}",
+            "void writeBody1(void) {",
+            paste0("sAppendN(&sbOut, ", vapply(paste0(l1, "\n"), deparse2, character(1)), ", ", nchar(l1) + 1, ");"),
+            "}",
+            "void writeBody2(void) {",
+            paste0("sAppendN(&sbOut, ", vapply(paste0(l2, "\n"), deparse2, character(1)), ", ", nchar(l2) + 1, ");"),
+            "}",
+            "void writeBody3(void) {",
+            paste0("sAppendN(&sbOut, ", vapply(paste0(l3, "\n"), deparse2, character(1)), ", ", nchar(l3) + 1, ");"),
+            "}",
+            "void writeFooter(void) {",
+            paste0("sAppendN(&sbOut, \"#undef ", def, "\\n\", ", nchar(def) + 8, ");"),
+            "}"
+            )
> 
> codegen2.h <- file("src/codegen2.h", "wb")
> writeLines(final,
+            codegen2.h)
> close(codegen2.h)
> 
> proc.time()
   user  system elapsed 
  0.250   0.072   0.295 
--------[begin src/Makevars]--------
# -*- mode: makefile-gmake -*-
BH=/usr/local/lib/R/library/BH/include
RCPP=/usr/local/lib/R/library/Rcpp/include
EG=/usr/local/lib/R/library/RcppEigen/include
SH=-isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src' 
CXX_STD = CXX17

################################################################################
## Package library flags.
PKG_LIBS    = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) $(SHLIB_OPENMP_CXXFLAGS) -L'/usr/local/lib/R/library/RcppParallel/lib/' -Wl,-rpath,'/usr/local/lib/R/library/RcppParallel/lib/' -ltbb -ltbbmalloc   -L/usr/lib64 -Wl,-rpath,/usr/lib64 -ltbb -ltbbmalloc

# Release options
PKG_CFLAGS  =  -D_isrxode2_
PKG_CXXFLAGS = $(SHLIB_OPENMP_CXXFLAGS) -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"$(BH)" -isystem"$(EG)" $(SH) -isystem"$(RCPP)"
--------[end src/Makevars]--------
--------[begin R/RxODE_md5.R]--------
rxode2.md5 <- "81d3f05c9cb380efff615aa6e88cf4c4"

--------[end R/RxODE_md5.R]--------
** libs
using C compiler: ‘gcc (GCC) 13.3.1 20240913 (Red Hat 13.3.1-3)’
using Fortran compiler: ‘GNU Fortran (GCC) 13.3.1 20240913 (Red Hat 13.3.1-3)’
using C++ compiler: ‘g++ (GCC) 13.3.1 20240913 (Red Hat 13.3.1-3)’
using C++17
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c RcppExports.cpp -o RcppExports.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c approx.c -o approx.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c boost.cpp -o boost.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c box.c -o box.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c call_dvode.c -o call_dvode.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c cbindThetaOmega.cpp -o cbindThetaOmega.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c cfode.c -o cfode.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c cfode_static.c -o cfode_static.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c checkmate.cpp -o checkmate.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c checkmate_stub.c -o checkmate_stub.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c codegen.c -o codegen.o
codegen.c: In function ‘codegen’:
codegen.c:344:19: warning: unused variable ‘assignOne’ [-Wunused-variable]
  344 |               int assignOne = 0;
      |                   ^~~~~~~~~
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c common.c -o common.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c corfailure.c -o corfailure.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c correction.c -o correction.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c cvPost.cpp -o cvPost.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c daxpy.c -o daxpy.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c ddot.c -o ddot.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c dgefa.c -o dgefa.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c dgesl.c -o dgesl.o
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules   -c dgpadm.f -o dgpadm.o
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules   -c dlsoda.f -o dlsoda.o
dlsoda.f: In function ‘dlsoda_’:
dlsoda.f:2536:72: warning: ‘ml’ may be used uninitialized [-Wmaybe-uninitialized]
 2536 |       IF (JT .GE. 4) LENWM = (2*ML + MU + 1)*N + 2
      |                                                                        ^
dlsoda.f:2407:32: note: ‘ml’ was declared here
 2407 |      1   LENIW, LENRW, LENWM, ML, MORD, MU, MXHNL0, MXSTP0
      |                                ^
dlsoda.f:2536:72: warning: ‘mu’ may be used uninitialized [-Wmaybe-uninitialized]
 2536 |       IF (JT .GE. 4) LENWM = (2*ML + MU + 1)*N + 2
      |                                                                        ^
dlsoda.f:2407:42: note: ‘mu’ was declared here
 2407 |      1   LENIW, LENRW, LENWM, ML, MORD, MU, MXHNL0, MXSTP0
      |                                          ^
dlsoda.f:2615:29: warning: ‘h0’ may be used uninitialized [-Wmaybe-uninitialized]
 2615 |       IF (H0 .NE. 0.0D0 .AND. (T + H0 - TCRIT)*H0 .GT. 0.0D0)
      |                             ^
dlsoda.f:2412:48: note: ‘h0’ was declared here
 2412 |       DOUBLE PRECISION ATOLI, AYI, BIG, EWTI, H0, HMAX, HMX, RH, RTOLI,
      |                                                ^
dlsoda.f:2851:72: warning: ‘tcrit’ may be used uninitialized [-Wmaybe-uninitialized]
 2851 |       IHIT = ABS(TN - TCRIT) .LE. 100.0D0*UROUND*HMX
      |                                                                        ^
dlsoda.f:2413:14: note: ‘tcrit’ was declared here
 2413 |      1   TCRIT, TDIST, TNEXT, TOL, TOLSF, TP, SIZE, SUM, W0
      |              ^
dlsoda.f:2874:10: warning: ‘ihit’ may be used uninitialized [-Wmaybe-uninitialized]
 2874 |       IF (IHIT) T = TCRIT
      |          ^
dlsoda.f:2415:18: note: ‘ihit’ was declared here
 2415 |       LOGICAL IHIT
      |                  ^
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c dop853.c -o dop853.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c dscal.c -o dscal.o
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules   -c dsphiv.f -o dsphiv.o
dsphiv.f: In function ‘dsphiv_’:
dsphiv.f:270:72: warning: ‘hj1j’ may be used uninitialized [-Wmaybe-uninitialized]
  270 |       wsp(iphih+mbrkdwn+1) = hj1j*wsp(iphih+2*mx+mbrkdwn-1)
      |                                                                        ^
dsphiv.f:125:35: note: ‘hj1j’ was declared here
  125 |      .                 avnorm, hj1j, hjj, SQR1
      |                                   ^
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c et.cpp -o et.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c etTran.cpp -o etTran.o
etTran.cpp: In function ‘Rcpp::List etTrans(Rcpp::List, const Rcpp::RObject&, bool, bool, bool, bool, Rcpp::Nullable<Rcpp::Vector<10, Rcpp::PreserveStorage> >, Rcpp::CharacterVector, bool, bool, bool, Rcpp::Nullable<Rcpp::Vector<19> >)’:
etTran.cpp:784:32: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses]
  784 |     if (hasCmt || covColi >= 0 && as<std::string>(lName[covColi]) != "cmt"){
      |                   ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
etTran.cpp:2521:34: warning: comparison of integer expressions of different signedness: ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 2521 |                        id.size() > (idxOut = idxOutput[iCur]) &&
      |                        ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
etTran.cpp:2524:40: warning: comparison of integer expressions of different signedness: ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 2524 |                        idxInput.size() > idxOut &&
      |                        ~~~~~~~~~~~~~~~~^~~~~~~~
etTran.cpp:2532:41: warning: comparison of integer expressions of different signedness: ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 2532 |                        idxOutput.size() < iCur+1 &&
      |                        ~~~~~~~~~~~~~~~~~^~~~~~~~
etTran.cpp:2533:34: warning: comparison of integer expressions of different signedness: ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 2533 |                        id.size() > (idxOut = idxOutput[iCur+1]) &&
      |                        ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
etTran.cpp:2536:40: warning: comparison of integer expressions of different signedness: ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 2536 |                        idxInput.size() > idxOut &&
      |                        ~~~~~~~~~~~~~~~~^~~~~~~~
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c expandGrid.cpp -o expandGrid.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c expm.cpp -o expm.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c fast_factor.cpp -o fast_factor.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c fnorm.c -o fnorm.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c forder.cpp -o forder.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c genModelVars.c -o genModelVars.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c getOption.c -o getOption.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c handle_evid.c -o handle_evid.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c idamax.c -o idamax.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c init.c -o init.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c intdy.c -o intdy.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c isEt.c -o isEt.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c itostr.c -o itostr.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c lincmt.c -o lincmt.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c lincmtB.cpp -o lincmtB.o
In file included from /usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor.hpp:13,
                 from /usr/local/lib/R/library/StanHeaders/include/stan/math/rev/fun.hpp:201,
                 from /usr/local/lib/R/library/StanHeaders/include/stan/math/rev.hpp:10,
                 from /usr/local/lib/R/library/StanHeaders/include/stan/math.hpp:19,
                 from lincmtB.cpp:64:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp: In function ‘void stan::math::internal::combination(std::vector<int>&, const int&, const int&, const int&)’:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:73:29: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   73 |   for (std::size_t i = 0; i < p - 1; i++) {
      |                           ~~^~~~~~~
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:79:16: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare]
   79 |     } while (k < x);
      |              ~~^~~
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp: In function ‘void stan::math::internal::combos(const int&, const double&, const int&, std::vector<std::vector<double, std::allocator<double> > >&)’:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:102:29: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  102 |   for (std::size_t i = 1; i != choose_dimk + 1; i++) {
      |                           ~~^~~~~~~~~~~~~~~~~~
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:105:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare]
  105 |     for (std::size_t j = 0; j != k; j++) {
      |                             ~~^~~~
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp: In function ‘void stan::math::internal::increment(std::vector<bool>&, const int&, const double&, const std::vector<int>&, std::vector<double, std::allocator<double> >&)’:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:126:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare]
  126 |     for (std::size_t j = 0; j != k; j++) {
      |                             ~~^~~~
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:132:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<bool>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  132 |   while ((first_zero < index.size()) && index[first_zero]) {
      |           ~~~~~~~~~~~^~~~~~~~~~~~~~
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:135:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<bool>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  135 |   if (first_zero == index.size()) {
      |       ~~~~~~~~~~~^~~~~~~~~~~~~~~
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:143:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  143 |     for (std::size_t i = 0; i != first_zero + 1; i++) {
      |                             ~~^~~~~~~~~~~~~~~~~
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp: In function ‘void stan::math::internal::signcombos(const int&, const double&, const int&, std::vector<std::vector<double, std::allocator<double> > >&)’:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:168:29: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  168 |   for (std::size_t i = 1; i != choose_dimk + 1; i++) {
      |                           ~~^~~~~~~~~~~~~~~~~~
In file included from /usr/local/lib/R/library/StanHeaders/include/stan/math/prim/prob/std_normal_ccdf_log.hpp:5,
                 from /usr/local/lib/R/library/StanHeaders/include/stan/math/prim/prob.hpp:328,
                 from /usr/local/lib/R/library/StanHeaders/include/stan/math/prim.hpp:16,
                 from /usr/local/lib/R/library/StanHeaders/include/stan/math/rev.hpp:14:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/prob/std_normal_lccdf.hpp: In function ‘stan::return_type_t<T> stan::math::std_normal_lccdf(const T_y&)’:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/prob/std_normal_lccdf.hpp:52: note: ‘-Wmisleading-indentation’ is disabled from this point onwards, since column-tracking was disabled due to the size of the code/headers
   52 |     } else if (y_dbl > 8.25) {
      | 
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/prob/std_normal_lccdf.hpp:52: note: adding ‘-flarge-source-files’ will allow for more column-tracking support, at the expense of compilation time and memory
In file included from lincmtB.cpp:108:
../inst/include/rxode2parseGetTime.h: In function ‘int handleInfusionStartRm(int*, int*, double*, int*, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’:
../inst/include/rxode2parseGetTime.h:223: warning: unused variable ‘curEvid’ [-Wunused-variable]
  223 |     int curEvid = getEvid(ind, ind->idose[*endIdx+1]);
      | 
In file included from /usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:5,
                 from /usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/check_2F1_converges.hpp:5,
                 from /usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err.hpp:4,
                 from /usr/local/lib/R/library/StanHeaders/include/stan/math/rev/core/profiling.hpp:9,
                 from /usr/local/lib/R/library/StanHeaders/include/stan/math/rev/core.hpp:53,
                 from /usr/local/lib/R/library/StanHeaders/include/stan/math/rev.hpp:8:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of ‘void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_finite<Eigen::Matrix<double, -1, 1> >(const char*, const char*, const Eigen::Matrix<double, -1, 1>&)::<lambda(double)>; T = Eigen::Matrix<double, -1, 1>; Indexings = {}; stan::require_eigen_t<T>* <anonymous> = 0; std::enable_if_t<((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime)>* <anonymous> = 0]’:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/check_finite.hpp:29:20:   required from ‘void stan::math::check_finite(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix<double, -1, 1>]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:35:15:   required from ‘stan::return_type_t<T_x, T_sigma, T_l> stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix<double, -1, 1>; Tb = Eigen::Matrix<double, -1, 1>; Tz = double; stan::require_all_eigen_st<std::is_arithmetic, Ta, Tb>* <anonymous> = 0; stan::require_arithmetic_t<Tz>* <anonymous> = 0; stan::return_type_t<T_x, T_sigma, T_l> = double]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_3F2.hpp:125:28:   required from ‘auto stan::math::hypergeometric_3F2(const Ta&, const Tb&, const Tz&) [with Ta = std::vector<double, std::allocator<double> >; Tb = std::vector<double, std::allocator<double> >; Tz = double; stan::require_all_vector_t<T_y, T_high>* <anonymous> = 0; stan::require_stan_scalar_t<T2>* <anonymous> = 0]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_3F2.hpp:148:28:   required from ‘auto stan::math::hypergeometric_3F2(const std::initializer_list<_Tp>&, const std::initializer_list<_Value>&, const Tz&) [with Ta = double; Tb = double; Tz = double; stan::require_all_stan_scalar_t<Ta, Tb, Tz>* <anonymous> = 0]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/rev/fun/inv_inc_beta.hpp:77:37:   required from here
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::EigenBase<Eigen::Matrix<double, -1, 1> >::Index’ {aka ‘long int’} [-Wsign-compare]
  153 |   for (size_t i = 0; i < x.size(); i++) {
      |                      ~~^~~~~~~~~~
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of ‘void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_not_nan<Eigen::Matrix<double, -1, 1> >(const char*, const char*, const Eigen::Matrix<double, -1, 1>&)::<lambda(double)>; T = Eigen::Matrix<double, -1, 1>; Indexings = {}; stan::require_eigen_t<T>* <anonymous> = 0; std::enable_if_t<((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime)>* <anonymous> = 0]’:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:28:20:   required from ‘void stan::math::check_not_nan(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix<double, -1, 1>]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:39:16:   required from ‘stan::return_type_t<T_x, T_sigma, T_l> stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix<double, -1, 1>; Tb = Eigen::Matrix<double, -1, 1>; Tz = double; stan::require_all_eigen_st<std::is_arithmetic, Ta, Tb>* <anonymous> = 0; stan::require_arithmetic_t<Tz>* <anonymous> = 0; stan::return_type_t<T_x, T_sigma, T_l> = double]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_3F2.hpp:125:28:   required from ‘auto stan::math::hypergeometric_3F2(const Ta&, const Tb&, const Tz&) [with Ta = std::vector<double, std::allocator<double> >; Tb = std::vector<double, std::allocator<double> >; Tz = double; stan::require_all_vector_t<T_y, T_high>* <anonymous> = 0; stan::require_stan_scalar_t<T2>* <anonymous> = 0]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_3F2.hpp:148:28:   required from ‘auto stan::math::hypergeometric_3F2(const std::initializer_list<_Tp>&, const std::initializer_list<_Value>&, const Tz&) [with Ta = double; Tb = double; Tz = double; stan::require_all_stan_scalar_t<Ta, Tb, Tz>* <anonymous> = 0]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/rev/fun/inv_inc_beta.hpp:77:37:   required from here
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::EigenBase<Eigen::Matrix<double, -1, 1> >::Index’ {aka ‘long int’} [-Wsign-compare]
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of ‘void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_finite<Eigen::Matrix<double, 2, 1> >(const char*, const char*, const Eigen::Matrix<double, 2, 1>&)::<lambda(double)>; T = Eigen::Matrix<double, 2, 1>; Indexings = {}; stan::require_eigen_t<T>* <anonymous> = 0; std::enable_if_t<((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime)>* <anonymous> = 0]’:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/check_finite.hpp:29:20:   required from ‘void stan::math::check_finite(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix<double, 2, 1>]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:35:15:   required from ‘stan::return_type_t<T_x, T_sigma, T_l> stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix<double, 2, 1>; Tb = Eigen::Matrix<double, 1, 1, 0, 1, 1>; Tz = double; stan::require_all_eigen_st<std::is_arithmetic, Ta, Tb>* <anonymous> = 0; stan::require_arithmetic_t<Tz>* <anonymous> = 0; stan::return_type_t<T_x, T_sigma, T_l> = double]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_2F1.hpp:189:30:   required from ‘stan::return_type_t<Ta1, Ta1, Tb, Tz> stan::math::hypergeometric_2F1(const Ta1&, const Ta2&, const Tb&, const Tz&) [with Ta1 = double; Ta2 = double; Tb = double; Tz = double; ScalarT = double; OptT = boost::optional<double>; stan::require_all_arithmetic_t<Ta1, Ta2, Tb, Tz>* <anonymous> = 0; stan::return_type_t<Ta1, Ta1, Tb, Tz> = double]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:190:39:   required from ‘TupleT stan::math::internal::grad_2F1_impl(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool calc_a1 = true; bool calc_a2 = true; bool calc_b1 = true; bool calc_z = true; T1 = double; T2 = double; T3 = double; T_z = double; ScalarT = double; TupleT = std::tuple<double, double, double, double>]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:306:57:   required from ‘auto stan::math::grad_2F1(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool ReturnSameT = true; T1 = double; T2 = double; T3 = double; T_z = double; stan::require_t<std::integral_constant<bool, __v> >* <anonymous> = 0]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/grad_inc_beta.hpp:37:25:   required from here
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::EigenBase<Eigen::Matrix<double, 2, 1> >::Index’ {aka ‘long int’} [-Wsign-compare]
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of ‘void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_finite<Eigen::Matrix<double, 1, 1, 0, 1, 1> >(const char*, const char*, const Eigen::Matrix<double, 1, 1, 0, 1, 1>&)::<lambda(double)>; T = Eigen::Matrix<double, 1, 1, 0, 1, 1>; Indexings = {}; stan::require_eigen_t<T>* <anonymous> = 0; std::enable_if_t<((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime)>* <anonymous> = 0]’:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/check_finite.hpp:29:20:   required from ‘void stan::math::check_finite(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix<double, 1, 1, 0, 1, 1>]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:36:15:   required from ‘stan::return_type_t<T_x, T_sigma, T_l> stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix<double, 2, 1>; Tb = Eigen::Matrix<double, 1, 1, 0, 1, 1>; Tz = double; stan::require_all_eigen_st<std::is_arithmetic, Ta, Tb>* <anonymous> = 0; stan::require_arithmetic_t<Tz>* <anonymous> = 0; stan::return_type_t<T_x, T_sigma, T_l> = double]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_2F1.hpp:189:30:   required from ‘stan::return_type_t<Ta1, Ta1, Tb, Tz> stan::math::hypergeometric_2F1(const Ta1&, const Ta2&, const Tb&, const Tz&) [with Ta1 = double; Ta2 = double; Tb = double; Tz = double; ScalarT = double; OptT = boost::optional<double>; stan::require_all_arithmetic_t<Ta1, Ta2, Tb, Tz>* <anonymous> = 0; stan::return_type_t<Ta1, Ta1, Tb, Tz> = double]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:190:39:   required from ‘TupleT stan::math::internal::grad_2F1_impl(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool calc_a1 = true; bool calc_a2 = true; bool calc_b1 = true; bool calc_z = true; T1 = double; T2 = double; T3 = double; T_z = double; ScalarT = double; TupleT = std::tuple<double, double, double, double>]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:306:57:   required from ‘auto stan::math::grad_2F1(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool ReturnSameT = true; T1 = double; T2 = double; T3 = double; T_z = double; stan::require_t<std::integral_constant<bool, __v> >* <anonymous> = 0]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/grad_inc_beta.hpp:37:25:   required from here
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::EigenBase<Eigen::Matrix<double, 1, 1, 0, 1, 1> >::Index’ {aka ‘long int’} [-Wsign-compare]
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of ‘void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_not_nan<Eigen::Matrix<double, 2, 1> >(const char*, const char*, const Eigen::Matrix<double, 2, 1>&)::<lambda(double)>; T = Eigen::Matrix<double, 2, 1>; Indexings = {}; stan::require_eigen_t<T>* <anonymous> = 0; std::enable_if_t<((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime)>* <anonymous> = 0]’:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:28:20:   required from ‘void stan::math::check_not_nan(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix<double, 2, 1>]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:39:16:   required from ‘stan::return_type_t<T_x, T_sigma, T_l> stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix<double, 2, 1>; Tb = Eigen::Matrix<double, 1, 1, 0, 1, 1>; Tz = double; stan::require_all_eigen_st<std::is_arithmetic, Ta, Tb>* <anonymous> = 0; stan::require_arithmetic_t<Tz>* <anonymous> = 0; stan::return_type_t<T_x, T_sigma, T_l> = double]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_2F1.hpp:189:30:   required from ‘stan::return_type_t<Ta1, Ta1, Tb, Tz> stan::math::hypergeometric_2F1(const Ta1&, const Ta2&, const Tb&, const Tz&) [with Ta1 = double; Ta2 = double; Tb = double; Tz = double; ScalarT = double; OptT = boost::optional<double>; stan::require_all_arithmetic_t<Ta1, Ta2, Tb, Tz>* <anonymous> = 0; stan::return_type_t<Ta1, Ta1, Tb, Tz> = double]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:190:39:   required from ‘TupleT stan::math::internal::grad_2F1_impl(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool calc_a1 = true; bool calc_a2 = true; bool calc_b1 = true; bool calc_z = true; T1 = double; T2 = double; T3 = double; T_z = double; ScalarT = double; TupleT = std::tuple<double, double, double, double>]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:306:57:   required from ‘auto stan::math::grad_2F1(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool ReturnSameT = true; T1 = double; T2 = double; T3 = double; T_z = double; stan::require_t<std::integral_constant<bool, __v> >* <anonymous> = 0]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/grad_inc_beta.hpp:37:25:   required from here
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::EigenBase<Eigen::Matrix<double, 2, 1> >::Index’ {aka ‘long int’} [-Wsign-compare]
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of ‘void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_not_nan<Eigen::Matrix<double, 1, 1, 0, 1, 1> >(const char*, const char*, const Eigen::Matrix<double, 1, 1, 0, 1, 1>&)::<lambda(double)>; T = Eigen::Matrix<double, 1, 1, 0, 1, 1>; Indexings = {}; stan::require_eigen_t<T>* <anonymous> = 0; std::enable_if_t<((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime)>* <anonymous> = 0]’:
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:28:20:   required from ‘void stan::math::check_not_nan(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix<double, 1, 1, 0, 1, 1>]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:40:16:   required from ‘stan::return_type_t<T_x, T_sigma, T_l> stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix<double, 2, 1>; Tb = Eigen::Matrix<double, 1, 1, 0, 1, 1>; Tz = double; stan::require_all_eigen_st<std::is_arithmetic, Ta, Tb>* <anonymous> = 0; stan::require_arithmetic_t<Tz>* <anonymous> = 0; stan::return_type_t<T_x, T_sigma, T_l> = double]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/hypergeometric_2F1.hpp:189:30:   required from ‘stan::return_type_t<Ta1, Ta1, Tb, Tz> stan::math::hypergeometric_2F1(const Ta1&, const Ta2&, const Tb&, const Tz&) [with Ta1 = double; Ta2 = double; Tb = double; Tz = double; ScalarT = double; OptT = boost::optional<double>; stan::require_all_arithmetic_t<Ta1, Ta2, Tb, Tz>* <anonymous> = 0; stan::return_type_t<Ta1, Ta1, Tb, Tz> = double]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:190:39:   required from ‘TupleT stan::math::internal::grad_2F1_impl(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool calc_a1 = true; bool calc_a2 = true; bool calc_b1 = true; bool calc_z = true; T1 = double; T2 = double; T3 = double; T_z = double; ScalarT = double; TupleT = std::tuple<double, double, double, double>]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:306:57:   required from ‘auto stan::math::grad_2F1(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool ReturnSameT = true; T1 = double; T2 = double; T3 = double; T_z = double; stan::require_t<std::integral_constant<bool, __v> >* <anonymous> = 0]’
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/fun/grad_inc_beta.hpp:37:25:   required from here
/usr/local/lib/R/library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::EigenBase<Eigen::Matrix<double, 1, 1, 0, 1, 1> >::Index’ {aka ‘long int’} [-Wsign-compare]
In function ‘handleInfusionItem(int, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’,
    inlined from ‘getTime__(int, rx_solving_options_ind*, int) [clone .constprop.0]’ at ../inst/include/rxode2parseGetTime.h:381:0:
../inst/include/rxode2parseGetTime.h:314: warning: ‘infBidx’ may be used uninitialized [-Wmaybe-uninitialized]
  314 |     if (infBidx == -1) return 0.0;
      | 
../inst/include/rxode2parseGetTime.h: In function ‘getTime__(int, rx_solving_options_ind*, int) [clone .constprop.0]’:
../inst/include/rxode2parseGetTime.h:312: note: ‘infBidx’ was declared here
  312 |     int infBidx;
      | 
In file included from /usr/local/lib/R/library/StanHeaders/include/stan/math/rev/core/operator_division.hpp:13,
                 from /usr/local/lib/R/library/StanHeaders/include/stan/math/rev/core/operator_divide_equal.hpp:5,
                 from /usr/local/lib/R/library/StanHeaders/include/stan/math/rev/core.hpp:29:
In member function ‘stan::math::internal::multiply_vd_vari::multiply_vd_vari(stan::math::vari_value<double, void>*, double)’,
    inlined from ‘stan::math::var_value<double, void>::operator*=(double)’ at /usr/local/lib/R/library/StanHeaders/include/stan/math/rev/core/operator_multiply_equal.hpp:24:9,
    inlined from ‘stan::math::var_value<double, void>::operator*=(double)’ at /usr/local/lib/R/library/StanHeaders/include/stan/math/rev/core/operator_multiply_equal.hpp:19:22,
    inlined from ‘stan::math::genericCmtInterface<stan::math::var_value<double, void> >(Eigen::Matrix<stan::math::var_value<double, void>, -1, 1, 0, -1, 1>&, Eigen::Matrix<double, -1, 1, 0, -1, 1> const&, double, int, int, int, int, int, int, rx_solving_options_ind*, rx_solve*, Eigen::Matrix<double, -1, -1, 0, -1, -1> const&, Eigen::Matrix<double, -1, -1, 0, -1, -1> const&)Eigen::Matrix<stan::math::var_value<double, void>, -1, -1, 0, -1, -1>’ at lincmtB.cpp:2438:0,
    inlined from ‘stan::math::linCmtFun::operator()<stan::math::var_value<double, void> >(Eigen::Matrix<stan::math::var_value<double, void>, -1, 1, 0, -1, 1>&) constEigen::Matrix<stan::math::var_value<double, void>, -1, 1, 0, -1, 1>’ at lincmtB.cpp:2510:0,
    inlined from ‘stan::math::jacobian<stan::math::linCmtFun>(stan::math::linCmtFun const&, Eigen::Matrix<double, -1, 1, 0, -1, 1> const&, Eigen::Matrix<double, -1, 1, 0, -1, 1>&, Eigen::Matrix<double, -1, -1, 0, -1, -1>&)void’ at /usr/local/lib/R/library/StanHeaders/include/stan/math/rev/functor/jacobian.hpp:23:27:
/usr/local/lib/R/library/StanHeaders/include/stan/math/rev/core/operator_multiplication.hpp:34:75: warning: ‘amt’ may be used uninitialized [-Wmaybe-uninitialized]
   34 |   multiply_vd_vari(vari* avi, double b) : op_vd_vari(avi->val_ * b, avi, b) {}
      |                                                                           ^
lincmtB.cpp: In function ‘stan::math::jacobian<stan::math::linCmtFun>(stan::math::linCmtFun const&, Eigen::Matrix<double, -1, 1, 0, -1, 1> const&, Eigen::Matrix<double, -1, 1, 0, -1, 1>&, Eigen::Matrix<double, -1, -1, 0, -1, -1>&)void’:
lincmtB.cpp:2187: note: ‘amt’ was declared here
 2187 |       double amt;
      | 
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c lsoda.c -o lsoda.o
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules   -c matexp.f -o matexp.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c matexp_HM98.c -o matexp_HM98.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c methodswitch.c -o methodswitch.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c nearPD.cpp -o nearPD.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c omegaChol.c -o omegaChol.o
gfortran  -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules   -c opkda2.f -o opkda2.o
opkda2.f: In function ‘ixsav_’:
opkda2.f:650:28: warning: ‘__result_ixsav’ may be used uninitialized [-Wmaybe-uninitialized]
  650 |       INTEGER FUNCTION IXSAV (IPAR, IVALUE, ISET)
      |                            ^
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c orderswitch.c -o orderswitch.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c par_solve.cpp -o par_solve.o
In file included from par_solve.cpp:15:
../inst/include/rxode2parseGetTime.h: In function ‘int handleInfusionStartRm(int*, int*, double*, int*, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’:
../inst/include/rxode2parseGetTime.h:223:9: warning: unused variable ‘curEvid’ [-Wunused-variable]
  223 |     int curEvid = getEvid(ind, ind->idose[*endIdx+1]);
      |         ^~~~~~~
par_solve.cpp: In function ‘void handleSS(int*, int*, double*, double*, double*, double, double, int, int*, int, int*, rx_solving_options*, rx_solving_options_ind*, t_update_inis, void*)’:
par_solve.cpp:1317:39: warning: variable ‘oldI’ set but not used [-Wunused-but-set-variable]
 1317 |       ei=0, wh, cmt, wh100, whI, wh0, oldI,
      |                                       ^~~~
../inst/include/rxode2parseGetTime.h: In function ‘handleInfusionItem(int, rx_solve*, rx_solving_options*, rx_solving_options_ind*) [clone .constprop.0]’:
../inst/include/rxode2parseGetTime.h:314:5: warning: ‘infBidx’ may be used uninitialized [-Wmaybe-uninitialized]
  314 |     if (infBidx == -1) return 0.0;
      |     ^~
../inst/include/rxode2parseGetTime.h:312:9: note: ‘infBidx’ was declared here
  312 |     int infBidx;
      |         ^~~~~~~
par_solve.cpp: In function ‘solveWith1Pt(int*, int*, double*, double*, double*, double, double, int, int*, int, int*, rx_solving_options*, rx_solving_options_ind*, void (*)(int, double*), void*) [clone .isra.0]’:
par_solve.cpp:708:5: warning: ‘idid’ may be used uninitialized [-Wmaybe-uninitialized]
  708 |     if (idid <= 0) {
      |     ^~
par_solve.cpp:701:7: note: ‘idid’ was declared here
  701 |   int idid, itol=0;
      |       ^~~~
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c parseLinCmt.c -o parseLinCmt.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c print_node.c -o print_node.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c prja.c -o prja.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c qs.cpp -o qs.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c rprintf.c -o rprintf.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c rx2api.c -o rx2api.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c rxData.cpp -o rxData.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c rxInv.cpp -o rxInv.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c rxOptRep.cpp -o rxOptRep.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c rxStack.cpp -o rxStack.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c rxode2_df.cpp -o rxode2_df.o
In file included from rxode2_df.cpp:36:
../inst/include/rxode2parseGetTime.h: In function ‘int handleInfusionStartRm(int*, int*, double*, int*, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’:
../inst/include/rxode2parseGetTime.h:223:9: warning: unused variable ‘curEvid’ [-Wunused-variable]
  223 |     int curEvid = getEvid(ind, ind->idose[*endIdx+1]);
      |         ^~~~~~~
In function ‘handleInfusionItem(int, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’,
    inlined from ‘getTime__(int, rx_solving_options_ind*, int) [clone .constprop.0]’ at ../inst/include/rxode2parseGetTime.h:381:34:
../inst/include/rxode2parseGetTime.h:314:5: warning: ‘infBidx’ may be used uninitialized [-Wmaybe-uninitialized]
  314 |     if (infBidx == -1) return 0.0;
      |     ^~
../inst/include/rxode2parseGetTime.h: In function ‘getTime__(int, rx_solving_options_ind*, int) [clone .constprop.0]’:
../inst/include/rxode2parseGetTime.h:312:9: note: ‘infBidx’ was declared here
  312 |     int infBidx;
      |         ^~~~~~~
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c rxthreefry.cpp -o rxthreefry.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c sbuf.c -o sbuf.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c scaleh.c -o scaleh.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c seed.cpp -o seed.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c solsy.c -o solsy.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c stoda.c -o stoda.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c strdup_printf.c -o strdup_printf.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c strncmp.c -o strncmp.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c strncmpi.c -o strncmpi.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c tran.c -o tran.o
In file included from parseFuns.h:151,
                 from tran.c:151:
parseFunsDosing.h: In function ‘handleFunctionTad’:
parseFunsDosing.h:86:61: warning: value computed is not used [-Wunused-value]
   86 |                         handleFunctionTadEmptyCcode(tf, v2) ||
      |                                                             ^~
In file included from tran.c:155:
parseAssignStr.h: In function ‘handleStrAssign’:
parseAssignStr.h:129:13: warning: unused variable ‘buf’ [-Wunused-variable]
  129 |       char *buf = tb.str.line[tb.id];
      |             ^~~
In file included from tran.c:156:
parseLevels.h: In function ‘handleLevelsStr1’:
parseLevels.h:94:11: warning: unused variable ‘n’ [-Wunused-variable]
   94 |       int n = get_str_assign_int(tb.id, v);
      |           ^
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c udf.cpp -o udf.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c utilc.c -o utilc.o
g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/usr/local/lib/R/library/BH/include" -isystem"/usr/local/lib/R/library/RcppEigen/include" -isystem'/usr/local/lib/R/library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS   -isystem/usr/include/tbb -isystem'/usr/local/lib/R/library/StanHeaders/include/src'  -isystem"/usr/local/lib/R/library/Rcpp/include" -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c utilcpp.cpp -o utilcpp.o
gcc -I"/usr/include/R" -DNDEBUG  -I'/usr/local/lib/R/library/sitmo/include' -I'/usr/local/lib/R/library/lotri/include' -I'/usr/local/lib/R/library/PreciseSums/include' -I'/usr/local/lib/R/library/Rcpp/include' -I'/usr/local/lib/R/library/RcppArmadillo/include' -I'/usr/local/lib/R/library/BH/include' -I'/usr/local/lib/R/library/RcppParallel/include' -I'/usr/local/lib/R/library/RcppEigen/include' -I'/usr/local/lib/R/library/StanHeaders/include' -I'/usr/local/lib/R/library/dparser/include' -I/usr/local/include   -D_isrxode2_ -fpic  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer   -c vmnorm.c -o vmnorm.o
g++ -std=gnu++17 -shared -L/usr/lib64/R/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 -Wl,--build-id=sha1 -o rxode2.so RcppExports.o approx.o boost.o box.o call_dvode.o cbindThetaOmega.o cfode.o cfode_static.o checkmate.o checkmate_stub.o codegen.o common.o corfailure.o correction.o cvPost.o daxpy.o ddot.o dgefa.o dgesl.o dgpadm.o dlsoda.o dop853.o dscal.o dsphiv.o et.o etTran.o expandGrid.o expm.o fast_factor.o fnorm.o forder.o genModelVars.o getOption.o handle_evid.o idamax.o init.o intdy.o isEt.o itostr.o lincmt.o lincmtB.o lsoda.o matexp.o matexp_HM98.o methodswitch.o nearPD.o omegaChol.o opkda2.o orderswitch.o par_solve.o parseLinCmt.o print_node.o prja.o qs.o rprintf.o rx2api.o rxData.o rxInv.o rxOptRep.o rxStack.o rxode2_df.o rxthreefry.o sbuf.o scaleh.o seed.o solsy.o stoda.o strdup_printf.o strncmp.o strncmpi.o tran.o udf.o utilc.o utilcpp.o vmnorm.o -lflexiblas -lgfortran -lm -lquadmath -fopenmp -L/usr/local/lib/R/library/RcppParallel/lib/ -Wl,-rpath,/usr/local/lib/R/library/RcppParallel/lib/ -ltbb -ltbbmalloc -L/usr/lib64 -Wl,-rpath,/usr/lib64 -ltbb -ltbbmalloc -lgfortran -lm -lquadmath -L/usr/lib64/R/lib -lR
installing via 'install.libs.R' to /builddir/build/BUILDROOT/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64/usr/local/lib/R/library/00LOCK-rxode2/00new/rxode2
** 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 ‘rxode2’
    finding HTML links ... done
    add.dosing                              html  
    add.sampling                            html  
    as.et                                   html  
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    genShinyApp.template                    html  
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    linMod                                  html  
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    rxGetrxode2                             html  
    rxHtml                                  html  
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    rxLhs                                   html  
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    rxNorm                                  html  
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    rxode2                                  html  
    rxode2parse                             html  
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    rxode2parseAssignTranslation            html  
    rxode2parseD                            html  
    rxode2parseGetPointerAssignment         html  
    rxode2parseGetTranslation               html  
    rxord                                   html  
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    stat_amt                                html  
    stat_cens                               html  
    summary.rxDll                           html  
    summary.rxode2                          html  
    swapMatListWithCube                     html  
    testIniDf                               html  
    testRxLinCmt                            html  
    testRxUnbounded                         html  
    toTrialDuration                         html  
    update.rxUi                             html  
    uppergamma                              html  
    zeroRe                                  html  
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (rxode2)
+ test -d rxode2/src
+ cd rxode2/src
+ rm -f RcppExports.o approx.o boost.o box.o call_dvode.o cbindThetaOmega.o cfode.o cfode_static.o checkmate.o checkmate_stub.o codegen.o common.o corfailure.o correction.o cvPost.o daxpy.o ddot.o dgefa.o dgesl.o dgpadm.o dlsoda.o dop853.o dscal.o dsphiv.o et.o etTran.o expandGrid.o expm.o fast_factor.o fnorm.o forder.o genModelVars.o getOption.o handle_evid.o idamax.o init.o intdy.o isEt.o itostr.o lincmt.o lincmtB.o lsoda.o matexp.o matexp_HM98.o methodswitch.o nearPD.o omegaChol.o opkda2.o orderswitch.o par_solve.o parseLinCmt.o print_node.o prja.o qs.o rprintf.o rx2api.o rxData.o rxInv.o rxOptRep.o rxStack.o rxode2_df.o rxthreefry.o sbuf.o scaleh.o seed.o solsy.o stoda.o strdup_printf.o strncmp.o strncmpi.o tran.o udf.o utilc.o utilcpp.o vmnorm.o rxode2.so
+ rm -f /builddir/build/BUILDROOT/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64/usr/local/lib/R/library/R.css
+ find /builddir/build/BUILDROOT/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64/usr/local/lib/R/library -type f -exec sed -i s@/builddir/build/BUILDROOT/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64@@g '{}' ';'
+ /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 3.0.2-1.fc39.copr8192634 --unique-debug-suffix -3.0.2-1.fc39.copr8192634.x86_64 --unique-debug-src-base R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/rxode2
find-debuginfo: starting
Extracting debug info from 1 files
DWARF-compressing 1 files
sepdebugcrcfix: Updated 1 CRC32s, 0 CRC32s did match.
Creating .debug symlinks for symlinks to ELF files
Copying sources found by 'debugedit -l' to /usr/src/debug/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64
cpio: rxode2/src/src/tran.g.d_parser.c: Cannot stat: No such file or directory
4766 blocks
find-debuginfo: done
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
+ /usr/lib/rpm/brp-remove-la-files
+ env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j2
+ /usr/lib/rpm/redhat/brp-python-hardlink
Processing files: R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64
Provides: R-CRAN-rxode2 = 3.0.2-1.fc39.copr8192634 R-CRAN-rxode2(x86-64) = 3.0.2-1.fc39.copr8192634
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: ld-linux-x86-64.so.2()(64bit) ld-linux-x86-64.so.2(GLIBC_2.3)(64bit) libR.so()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.11)(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.2)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libflexiblas.so.3()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libgcc_s.so.1(GCC_4.0.0)(64bit) libgomp.so.1()(64bit) libgomp.so.1(GOMP_1.0)(64bit) libgomp.so.1(GOMP_4.0)(64bit) libgomp.so.1(OMP_1.0)(64bit) libgomp.so.1(OMP_3.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.29)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.5)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.15)(64bit) libstdc++.so.6(GLIBCXX_3.4.18)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.30)(64bit) libstdc++.so.6(GLIBCXX_3.4.32)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) libtbb.so.2()(64bit) rtld(GNU_HASH)
Processing files: R-CRAN-rxode2-debugsource-3.0.2-1.fc39.copr8192634.x86_64
Provides: R-CRAN-rxode2-debugsource = 3.0.2-1.fc39.copr8192634 R-CRAN-rxode2-debugsource(x86-64) = 3.0.2-1.fc39.copr8192634
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: R-CRAN-rxode2-debuginfo-3.0.2-1.fc39.copr8192634.x86_64
Provides: R-CRAN-rxode2-debuginfo = 3.0.2-1.fc39.copr8192634 R-CRAN-rxode2-debuginfo(x86-64) = 3.0.2-1.fc39.copr8192634 debuginfo(build-id) = 2b72de72e98496cd77aa9c9afac82312fac1f71f
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: R-CRAN-rxode2-debugsource(x86-64) = 3.0.2-1.fc39.copr8192634
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64
Wrote: /builddir/build/RPMS/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64.rpm
Wrote: /builddir/build/RPMS/R-CRAN-rxode2-debugsource-3.0.2-1.fc39.copr8192634.x86_64.rpm
Wrote: /builddir/build/RPMS/R-CRAN-rxode2-debuginfo-3.0.2-1.fc39.copr8192634.x86_64.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.CHcvqf
+ umask 022
+ cd /builddir/build/BUILD
+ cd rxode2
+ /usr/bin/rm -rf /builddir/build/BUILDROOT/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.x86_64
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.HoTCLg
+ umask 022
+ cd /builddir/build/BUILD
+ rm -rf /builddir/build/BUILD/rxode2-SPECPARTS
+ rm -rf rxode2 rxode2.gemspec
+ RPM_EC=0
++ jobs -p
+ exit 0

RPM build warnings:
    source_date_epoch_from_changelog set but %changelog is missing
Finish: rpmbuild R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.src.rpm
Finish: build phase for R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.src.rpm
INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-39-x86_64-1730339473.970307/root/var/log/dnf.log
/var/lib/mock/fedora-39-x86_64-1730339473.970307/root/var/log/dnf.librepo.log
/var/lib/mock/fedora-39-x86_64-1730339473.970307/root/var/log/dnf.rpm.log
INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz
/bin/tar: Removing leading `/' from member names
INFO: Done(/var/lib/copr-rpmbuild/results/R-CRAN-rxode2-3.0.2-1.fc39.copr8192634.src.rpm) Config(child) 6 minutes 0 seconds
INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results
INFO: Cleaning up build root ('cleanup_on_success=True')
Start: clean chroot
INFO: unmounting tmpfs.
Finish: clean chroot
Finish: run
Running RPMResults tool
Package info:
{
    "packages": [
        {
            "name": "R-CRAN-rxode2-debugsource",
            "epoch": null,
            "version": "3.0.2",
            "release": "1.fc39.copr8192634",
            "arch": "x86_64"
        },
        {
            "name": "R-CRAN-rxode2",
            "epoch": null,
            "version": "3.0.2",
            "release": "1.fc39.copr8192634",
            "arch": "x86_64"
        },
        {
            "name": "R-CRAN-rxode2",
            "epoch": null,
            "version": "3.0.2",
            "release": "1.fc39.copr8192634",
            "arch": "src"
        },
        {
            "name": "R-CRAN-rxode2-debuginfo",
            "epoch": null,
            "version": "3.0.2",
            "release": "1.fc39.copr8192634",
            "arch": "x86_64"
        }
    ]
}
RPMResults finished