Warning: Permanently added '100.29.41.135' (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/9001198-fedora-rawhide-aarch64 --chroot fedora-rawhide-aarch64


Version: 1.3
PID: 8948
Logging PID: 8949
Task:
{'allow_user_ssh': False,
 'appstream': False,
 'background': True,
 'build_id': 9001198,
 'buildroot_pkgs': [],
 'chroot': 'fedora-rawhide-aarch64',
 'enable_net': False,
 'fedora_review': False,
 'git_hash': '9b4b3bfcc11c6fe64d3161310026946d17fde47b',
 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/jplesnik/perl-test/bionetgen',
 'isolation': 'default',
 'memory_reqs': 2048,
 'package_name': 'bionetgen',
 'package_version': '2.9.0-1',
 'project_dirname': 'perl-test',
 'project_name': 'perl-test',
 'project_owner': 'jplesnik',
 'repo_priority': None,
 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/jplesnik/perl-test/fedora-rawhide-aarch64/',
            'id': 'copr_base',
            'name': 'Copr repository',
            'priority': None}],
 'sandbox': 'jplesnik/perl-test--jplesnik',
 'source_json': {},
 'source_type': None,
 'ssh_public_keys': None,
 'storage': 0,
 'submitter': 'jplesnik',
 'tags': [],
 'task_id': '9001198-fedora-rawhide-aarch64',
 'timeout': 18000,
 'uses_devel_repo': False,
 'with_opts': [],
 'without_opts': []}

Running: git clone https://copr-dist-git.fedorainfracloud.org/git/jplesnik/perl-test/bionetgen /var/lib/copr-rpmbuild/workspace/workdir-n3mqwz_s/bionetgen --depth 500 --no-single-branch --recursive

cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/jplesnik/perl-test/bionetgen', '/var/lib/copr-rpmbuild/workspace/workdir-n3mqwz_s/bionetgen', '--depth', '500', '--no-single-branch', '--recursive']
cwd: .
rc: 0
stdout: 
stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-n3mqwz_s/bionetgen'...

Running: git checkout 9b4b3bfcc11c6fe64d3161310026946d17fde47b --

cmd: ['git', 'checkout', '9b4b3bfcc11c6fe64d3161310026946d17fde47b', '--']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-n3mqwz_s/bionetgen
rc: 0
stdout: 
stderr: Note: switching to '9b4b3bfcc11c6fe64d3161310026946d17fde47b'.

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 9b4b3bf automatic import of bionetgen

Running: dist-git-client sources

cmd: ['dist-git-client', 'sources']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-n3mqwz_s/bionetgen
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 bionetgen-BioNetGen-2.9.0.tar.gz
INFO: Reading stdout from command: curl --help all
INFO: Calling: curl -H Pragma: -o bionetgen-BioNetGen-2.9.0.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/jplesnik/perl-test/bionetgen/bionetgen-BioNetGen-2.9.0.tar.gz/md5/1b9d5df4ac2f34e1d5c187ffcc73df33/bionetgen-BioNetGen-2.9.0.tar.gz
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100 40.0M  100 40.0M    0     0   406M      0 --:--:-- --:--:-- --:--:--  409M
INFO: Reading stdout from command: md5sum bionetgen-BioNetGen-2.9.0.tar.gz

/usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated
Running (timeout=18000): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-n3mqwz_s/bionetgen/bionetgen.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-n3mqwz_s/bionetgen --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1746538555.779123 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
INFO: mock.py version 6.1 starting (python version = 3.13.0, NVR = mock-6.1-1.fc41), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-n3mqwz_s/bionetgen/bionetgen.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-n3mqwz_s/bionetgen --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1746538555.779123 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
Start(bootstrap): init plugins
INFO: tmpfs initialized
INFO: selinux enabled
INFO: chroot_scan: initialized
INFO: compress_logs: initialized
Finish(bootstrap): init plugins
Start: init plugins
INFO: tmpfs initialized
INFO: selinux enabled
INFO: chroot_scan: initialized
INFO: compress_logs: initialized
Finish: init plugins
INFO: Signal handler active
Start: run
INFO: Start(/var/lib/copr-rpmbuild/workspace/workdir-n3mqwz_s/bionetgen/bionetgen.spec)  Config(fedora-rawhide-aarch64)
Start: clean chroot
Finish: clean chroot
Mock Version: 6.1
INFO: Mock Version: 6.1
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1746538555.779123/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start(bootstrap): cleaning package manager metadata
Finish(bootstrap): cleaning package manager metadata
INFO: Guessed host environment type: unknown
INFO: Using container image: registry.fedoraproject.org/fedora:rawhide
INFO: Pulling image: registry.fedoraproject.org/fedora:rawhide
INFO: Tagging container image as mock-bootstrap-6ee82bf5-6157-4633-b820-97154468234e
INFO: Checking that ce7cd4486b7d0574c6bca268f414b8e9d800dfb196fc766aa6d3e7f70cca5cd5 image matches host's architecture
INFO: Copy content of container ce7cd4486b7d0574c6bca268f414b8e9d800dfb196fc766aa6d3e7f70cca5cd5 to /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1746538555.779123/root
INFO: mounting ce7cd4486b7d0574c6bca268f414b8e9d800dfb196fc766aa6d3e7f70cca5cd5 with podman image mount
INFO: image ce7cd4486b7d0574c6bca268f414b8e9d800dfb196fc766aa6d3e7f70cca5cd5 as /var/lib/containers/storage/overlay/c926679c07a2bd1705ab1f25969f5b18f5fea09b8528bd0c8ff761512985a72a/merged
INFO: umounting image ce7cd4486b7d0574c6bca268f414b8e9d800dfb196fc766aa6d3e7f70cca5cd5 (/var/lib/containers/storage/overlay/c926679c07a2bd1705ab1f25969f5b18f5fea09b8528bd0c8ff761512985a72a/merged) with podman image umount
INFO: Removing image mock-bootstrap-6ee82bf5-6157-4633-b820-97154468234e
INFO: Package manager dnf5 detected and used (fallback)
INFO: Not updating bootstrap chroot, bootstrap_image_ready=True
Start(bootstrap): creating root cache
Finish(bootstrap): creating root cache
Finish(bootstrap): chroot init
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-1746538555.779123/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 dnf5 detected and used (direct choice)
INFO: Buildroot is handled by package management downloaded with a bootstrap image:
  rpm-5.99.90-4.fc43.aarch64
  rpm-sequoia-1.8.0-1.fc43.aarch64
  dnf5-5.2.13.1-1.fc43.aarch64
  dnf5-plugins-5.2.13.1-1.fc43.aarch64
Start: installing minimal buildroot with dnf5
Updating and loading repositories:
 fedora                                 100% |  28.7 MiB/s |  20.7 MiB |  00m01s
 Copr repository                        100% |  23.5 MiB/s |   1.2 MiB |  00m00s
Repositories loaded.
Package                            Arch    Version                    Repository      Size
Installing group/module packages:
 bash                              aarch64 5.2.37-3.fc43              fedora       8.2 MiB
 bzip2                             aarch64 1.0.8-20.fc42              fedora     171.3 KiB
 coreutils                         aarch64 9.7-1.fc43                 fedora       8.1 MiB
 cpio                              aarch64 2.15-2.fc41                fedora       1.2 MiB
 diffutils                         aarch64 3.12-2.fc43                fedora       1.6 MiB
 fedora-release-common             noarch  43-0.15                    fedora      20.4 KiB
 findutils                         aarch64 1:4.10.0-5.fc42            fedora       1.9 MiB
 gawk                              aarch64 5.3.2-1.fc43               fedora       2.6 MiB
 glibc-minimal-langpack            aarch64 2.41.9000-12.fc43          fedora       0.0   B
 grep                              aarch64 3.12-1.fc43                fedora       1.0 MiB
 gzip                              aarch64 1.13-3.fc42                fedora     424.7 KiB
 info                              aarch64 7.2-3.fc42                 fedora     421.6 KiB
 patch                             aarch64 2.8-1.fc43                 fedora     262.6 KiB
 redhat-rpm-config                 noarch  343-4.fc43                 fedora     185.6 KiB
 rpm-build                         aarch64 5.99.90-4.fc43             fedora     593.1 KiB
 sed                               aarch64 4.9-4.fc42                 fedora     873.2 KiB
 shadow-utils                      aarch64 2:4.17.4-1.fc43            fedora       4.5 MiB
 tar                               aarch64 2:1.35-5.fc42              fedora       3.0 MiB
 unzip                             aarch64 6.0-66.fc42                fedora     470.2 KiB
 util-linux                        aarch64 2.40.4-7.fc43              fedora       6.6 MiB
 which                             aarch64 2.23-1.fc42                fedora     123.4 KiB
 xz                                aarch64 1:5.8.1-1.fc43             fedora       1.4 MiB
Installing dependencies:
 add-determinism                   aarch64 0.6.0-1.fc43               fedora       2.2 MiB
 alternatives                      aarch64 1.32-1.fc43                fedora      90.2 KiB
 ansible-srpm-macros               noarch  1-17.1.fc42                fedora      35.7 KiB
 audit-libs                        aarch64 4.0.3-2.fc42               fedora     415.2 KiB
 binutils                          aarch64 2.44-3.fc43                fedora      29.3 MiB
 build-reproducibility-srpm-macros noarch  0.6.0-1.fc43               fedora     735.0   B
 bzip2-libs                        aarch64 1.0.8-20.fc42              fedora      72.6 KiB
 ca-certificates                   noarch  2024.2.69_v8.0.401-5.fc42  fedora       2.6 MiB
 coreutils-common                  aarch64 9.7-1.fc43                 fedora      11.3 MiB
 crypto-policies                   noarch  20250402-2.git86c0178.fc43 fedora     141.5 KiB
 curl                              aarch64 8.14.0~rc1-1.fc43          fedora     469.2 KiB
 cyrus-sasl-lib                    aarch64 2.1.28-30.fc42             fedora       2.4 MiB
 debugedit                         aarch64 5.1-6.fc43                 fedora     244.6 KiB
 dwz                               aarch64 0.15-9.fc42                fedora     322.6 KiB
 ed                                aarch64 1.21-2.fc42                fedora     154.5 KiB
 efi-srpm-macros                   noarch  6-3.fc43                   fedora      40.1 KiB
 elfutils                          aarch64 0.192-8.fc42               fedora       3.1 MiB
 elfutils-debuginfod-client        aarch64 0.192-8.fc42               fedora     143.9 KiB
 elfutils-default-yama-scope       noarch  0.192-8.fc42               fedora       1.8 KiB
 elfutils-libelf                   aarch64 0.192-8.fc42               fedora       1.2 MiB
 elfutils-libs                     aarch64 0.192-8.fc42               fedora     746.3 KiB
 fedora-gpg-keys                   noarch  43-0.2                     fedora     129.0 KiB
 fedora-release                    noarch  43-0.15                    fedora       0.0   B
 fedora-release-identity-basic     noarch  43-0.15                    fedora     664.0   B
 fedora-repos                      noarch  43-0.2                     fedora       4.9 KiB
 fedora-repos-rawhide              noarch  43-0.2                     fedora       2.2 KiB
 file                              aarch64 5.46-1.fc42                fedora     140.2 KiB
 file-libs                         aarch64 5.46-1.fc42                fedora      11.9 MiB
 filesystem                        aarch64 3.18-40.fc43               fedora     112.0   B
 filesystem-srpm-macros            noarch  3.18-40.fc43               fedora      38.2 KiB
 fonts-srpm-macros                 noarch  1:2.0.5-21.fc42            fedora      55.8 KiB
 forge-srpm-macros                 noarch  0.4.0-2.fc42               fedora      38.9 KiB
 fpc-srpm-macros                   noarch  1.3-14.fc42                fedora     144.0   B
 gdb-minimal                       aarch64 16.3-1.fc43                fedora      13.0 MiB
 gdbm-libs                         aarch64 1:1.23-9.fc42              fedora     234.0 KiB
 ghc-srpm-macros                   noarch  1.9.2-2.fc42               fedora     779.0   B
 glibc                             aarch64 2.41.9000-12.fc43          fedora       6.3 MiB
 glibc-common                      aarch64 2.41.9000-12.fc43          fedora       1.3 MiB
 glibc-gconv-extra                 aarch64 2.41.9000-12.fc43          fedora      18.6 MiB
 gmp                               aarch64 1:6.3.0-3.fc43             fedora     657.9 KiB
 gnat-srpm-macros                  noarch  6-7.fc42                   fedora       1.0 KiB
 gnupg2                            aarch64 2.4.7-3.fc43               fedora      10.4 MiB
 gnutls                            aarch64 3.8.9-5.fc43               fedora       3.4 MiB
 go-srpm-macros                    noarch  3.6.0-7.fc43               fedora      60.8 KiB
 ima-evm-utils-libs                aarch64 1.6.2-5.fc43               fedora      92.7 KiB
 jansson                           aarch64 2.14-2.fc42                fedora      93.2 KiB
 json-c                            aarch64 0.18-2.fc42                fedora     138.7 KiB
 kernel-srpm-macros                noarch  1.0-25.fc42                fedora       1.9 KiB
 keyutils-libs                     aarch64 1.6.3-5.fc42               fedora      98.3 KiB
 krb5-libs                         aarch64 1.21.3-5.fc42              fedora       2.5 MiB
 libacl                            aarch64 2.3.2-3.fc42               fedora      66.3 KiB
 libarchive                        aarch64 3.7.7-4.fc43               fedora     910.6 KiB
 libassuan                         aarch64 2.5.7-3.fc42               fedora     215.8 KiB
 libattr                           aarch64 2.5.2-5.fc42               fedora      67.1 KiB
 libblkid                          aarch64 2.40.4-7.fc43              fedora     290.5 KiB
 libbrotli                         aarch64 1.1.0-6.fc42               fedora     909.5 KiB
 libcap                            aarch64 2.76-1.fc43                fedora     508.8 KiB
 libcap-ng                         aarch64 0.8.5-4.fc42               fedora     160.9 KiB
 libcom_err                        aarch64 1.47.2-3.fc42              fedora     111.2 KiB
 libcurl                           aarch64 8.14.0~rc1-1.fc43          fedora     851.0 KiB
 libeconf                          aarch64 0.7.6-1.fc43               fedora      80.6 KiB
 libevent                          aarch64 2.1.12-15.fc42             fedora       1.1 MiB
 libfdisk                          aarch64 2.40.4-7.fc43              fedora     418.8 KiB
 libffi                            aarch64 3.4.7-4.fc43               fedora     154.7 KiB
 libfsverity                       aarch64 1.6-2.fc42                 fedora      68.5 KiB
 libgcc                            aarch64 15.1.1-1.fc43              fedora     222.2 KiB
 libgcrypt                         aarch64 1.11.0-5.fc42              fedora       1.1 MiB
 libgomp                           aarch64 15.1.1-1.fc43              fedora     514.0 KiB
 libgpg-error                      aarch64 1.55-1.fc43                fedora     971.2 KiB
 libidn2                           aarch64 2.3.8-1.fc43               fedora     560.6 KiB
 libksba                           aarch64 1.6.7-3.fc42               fedora     398.4 KiB
 libmount                          aarch64 2.40.4-7.fc43              fedora     355.8 KiB
 libnghttp2                        aarch64 1.65.0-1.fc43              fedora     197.9 KiB
 libpkgconf                        aarch64 2.3.0-2.fc42               fedora     134.0 KiB
 libpsl                            aarch64 0.21.5-5.fc42              fedora     132.5 KiB
 libselinux                        aarch64 3.8-1.fc42                 fedora     201.1 KiB
 libsemanage                       aarch64 3.8-1.fc42                 fedora     360.0 KiB
 libsepol                          aarch64 3.8-1.fc42                 fedora     809.9 KiB
 libsmartcols                      aarch64 2.40.4-7.fc43              fedora     224.4 KiB
 libssh                            aarch64 0.11.1-4.fc42              fedora     585.4 KiB
 libssh-config                     noarch  0.11.1-4.fc42              fedora     277.0   B
 libstdc++                         aarch64 15.1.1-1.fc43              fedora       2.8 MiB
 libtasn1                          aarch64 4.20.0-1.fc43              fedora     220.3 KiB
 libtool-ltdl                      aarch64 2.5.4-4.fc42               fedora      94.0 KiB
 libunistring                      aarch64 1.1-9.fc42                 fedora       1.7 MiB
 libusb1                           aarch64 1.0.28-2.fc43              fedora     178.7 KiB
 libuuid                           aarch64 2.40.4-7.fc43              fedora      69.4 KiB
 libverto                          aarch64 0.3.2-10.fc42              fedora      69.4 KiB
 libxcrypt                         aarch64 4.4.38-7.fc43              fedora     272.5 KiB
 libxml2                           aarch64 2.12.10-1.fc43             fedora       1.9 MiB
 libzstd                           aarch64 1.5.7-1.fc43               fedora     667.7 KiB
 lua-libs                          aarch64 5.4.7-3.fc43               fedora     328.9 KiB
 lua-srpm-macros                   noarch  1-15.fc42                  fedora       1.3 KiB
 lz4-libs                          aarch64 1.10.0-2.fc42              fedora     197.4 KiB
 mpfr                              aarch64 4.2.2-1.fc43               fedora     755.6 KiB
 ncurses-base                      noarch  6.5-5.20250125.fc42        fedora     326.8 KiB
 ncurses-libs                      aarch64 6.5-5.20250125.fc42        fedora       1.2 MiB
 nettle                            aarch64 3.10.1-1.fc43              fedora     765.3 KiB
 npth                              aarch64 1.8-2.fc42                 fedora      93.5 KiB
 ocaml-srpm-macros                 noarch  10-4.fc42                  fedora       1.9 KiB
 openblas-srpm-macros              noarch  2-19.fc42                  fedora     112.0   B
 openldap                          aarch64 2.6.9-6.fc43               copr_base  697.2 KiB
 openssl-libs                      aarch64 1:3.5.0-3.fc43             fedora       7.4 MiB
 p11-kit                           aarch64 0.25.5-5.fc42              fedora       2.4 MiB
 p11-kit-trust                     aarch64 0.25.5-5.fc42              fedora     463.3 KiB
 package-notes-srpm-macros         noarch  0.5-13.fc42                fedora       1.6 KiB
 pam-libs                          aarch64 1.7.0-4.fc42               fedora     222.9 KiB
 pcre2                             aarch64 10.45-1.fc43               fedora     713.6 KiB
 pcre2-syntax                      noarch  10.45-1.fc43               fedora     273.9 KiB
 perl-srpm-macros                  noarch  1-58.fc43                  copr_base  859.0   B
 pkgconf                           aarch64 2.3.0-2.fc42               fedora     112.4 KiB
 pkgconf-m4                        noarch  2.3.0-2.fc42               fedora      14.4 KiB
 pkgconf-pkg-config                aarch64 2.3.0-2.fc42               fedora     990.0   B
 popt                              aarch64 1.19-8.fc42                fedora     144.8 KiB
 publicsuffix-list-dafsa           noarch  20250116-1.fc42            fedora      68.5 KiB
 pyproject-srpm-macros             noarch  1.18.1-1.fc43              fedora       1.9 KiB
 python-srpm-macros                noarch  3.13-5.fc43                fedora      51.7 KiB
 qt5-srpm-macros                   noarch  5.15.16-1.fc43             fedora     500.0   B
 qt6-srpm-macros                   noarch  6.9.0-2.fc43               fedora     464.0   B
 readline                          aarch64 8.2-13.fc43                fedora     561.0 KiB
 rpm                               aarch64 5.99.90-4.fc43             fedora       3.3 MiB
 rpm-build-libs                    aarch64 5.99.90-4.fc43             fedora     264.1 KiB
 rpm-libs                          aarch64 5.99.90-4.fc43             fedora     995.3 KiB
 rpm-sequoia                       aarch64 1.8.0-1.fc43               fedora       2.4 MiB
 rpm-sign-libs                     aarch64 5.99.90-4.fc43             fedora      67.7 KiB
 rust-srpm-macros                  noarch  26.3-4.fc42                fedora       4.8 KiB
 setup                             noarch  2.15.0-23.fc43             fedora     724.7 KiB
 sqlite-libs                       aarch64 3.49.0-1.fc43              fedora       1.5 MiB
 systemd-libs                      aarch64 257.5-2.fc43               fedora       2.3 MiB
 systemd-standalone-sysusers       aarch64 257.5-2.fc43               fedora     329.4 KiB
 tpm2-tss                          aarch64 4.1.3-7.fc43               fedora       2.1 MiB
 tree-sitter-srpm-macros           noarch  0.2.4-1.fc43               fedora       7.5 KiB
 util-linux-core                   aarch64 2.40.4-7.fc43              fedora       2.4 MiB
 xxhash-libs                       aarch64 0.8.3-2.fc42               fedora      85.9 KiB
 xz-libs                           aarch64 1:5.8.1-1.fc43             fedora     201.5 KiB
 zig-srpm-macros                   noarch  1-4.fc42                   fedora       1.1 KiB
 zip                               aarch64 3.0-43.fc42                fedora     762.5 KiB
 zlib-ng-compat                    aarch64 2.2.4-2.fc43               fedora     133.4 KiB
 zstd                              aarch64 1.5.7-1.fc43               fedora       1.5 MiB
Installing groups:
 Buildsystem building group                                                               

Transaction Summary:
 Installing:       161 packages

Total size of inbound packages is 57 MiB. Need to download 57 MiB.
After this operation, 224 MiB extra will be used (install 224 MiB, remove 0 B).
[  1/161] bzip2-0:1.0.8-20.fc42.aarch64 100% |   3.0 MiB/s |  52.0 KiB |  00m00s
[  2/161] bash-0:5.2.37-3.fc43.aarch64  100% |  74.4 MiB/s |   1.8 MiB |  00m00s
[  3/161] cpio-0:2.15-2.fc41.aarch64    100% |  40.6 MiB/s | 291.4 KiB |  00m00s
[  4/161] coreutils-0:9.7-1.fc43.aarch6 100% |  39.0 MiB/s |   1.1 MiB |  00m00s
[  5/161] diffutils-0:3.12-2.fc43.aarch 100% |  76.2 MiB/s | 390.2 KiB |  00m00s
[  6/161] fedora-release-common-0:43-0. 100% |   6.4 MiB/s |  26.3 KiB |  00m00s
[  7/161] findutils-1:4.10.0-5.fc42.aar 100% | 135.3 MiB/s | 554.3 KiB |  00m00s
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[ 18/161] tar-2:1.35-5.fc42.aarch64     100% | 104.1 MiB/s | 853.0 KiB |  00m00s
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[ 20/161] util-linux-0:2.40.4-7.fc43.aa 100% | 190.1 MiB/s |   1.1 MiB |  00m00s
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[ 26/161] glibc-0:2.41.9000-12.fc43.aar 100% |  85.2 MiB/s |   1.8 MiB |  00m00s
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[ 28/161] coreutils-common-0:9.7-1.fc43 100% | 150.0 MiB/s |   2.1 MiB |  00m00s
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[ 30/161] libattr-0:2.5.2-5.fc42.aarch6 100% |   5.4 MiB/s |  16.4 KiB |  00m00s
[ 31/161] libcap-0:2.76-1.fc43.aarch64  100% |  28.6 MiB/s |  87.8 KiB |  00m00s
[ 32/161] libselinux-0:3.8-1.fc42.aarch 100% |  31.2 MiB/s |  95.9 KiB |  00m00s
[ 33/161] openssl-libs-1:3.5.0-3.fc43.a 100% | 270.5 MiB/s |   2.4 MiB |  00m00s
[ 34/161] fedora-repos-0:43-0.2.noarch  100% |   1.3 MiB/s |   9.2 KiB |  00m00s
[ 35/161] systemd-libs-0:257.5-2.fc43.a 100% |  66.8 MiB/s | 752.8 KiB |  00m00s
[ 36/161] mpfr-0:4.2.2-1.fc43.aarch64   100% |  62.9 MiB/s | 322.0 KiB |  00m00s
[ 37/161] readline-0:8.2-13.fc43.aarch6 100% |  41.3 MiB/s | 211.6 KiB |  00m00s
[ 38/161] glibc-common-0:2.41.9000-12.f 100% |  58.1 MiB/s | 297.4 KiB |  00m00s
[ 39/161] pcre2-0:10.45-1.fc43.aarch64  100% |  47.4 MiB/s | 242.7 KiB |  00m00s
[ 40/161] ed-0:1.21-2.fc42.aarch64      100% |  20.0 MiB/s |  81.9 KiB |  00m00s
[ 41/161] ansible-srpm-macros-0:1-17.1. 100% |  19.8 MiB/s |  20.3 KiB |  00m00s
[ 42/161] build-reproducibility-srpm-ma 100% |  11.4 MiB/s |  11.7 KiB |  00m00s
[ 43/161] efi-srpm-macros-0:6-3.fc43.no 100% |  11.0 MiB/s |  22.5 KiB |  00m00s
[ 44/161] dwz-0:0.15-9.fc42.aarch64     100% |  32.2 MiB/s | 131.7 KiB |  00m00s
[ 45/161] file-0:5.46-1.fc42.aarch64    100% |  15.9 MiB/s |  48.9 KiB |  00m00s
[ 46/161] filesystem-srpm-macros-0:3.18 100% |  12.5 MiB/s |  25.7 KiB |  00m00s
[ 47/161] fonts-srpm-macros-1:2.0.5-21. 100% |   8.8 MiB/s |  27.1 KiB |  00m00s
[ 48/161] forge-srpm-macros-0:0.4.0-2.f 100% |   6.5 MiB/s |  19.9 KiB |  00m00s
[ 49/161] fpc-srpm-macros-0:1.3-14.fc42 100% |   3.9 MiB/s |   8.0 KiB |  00m00s
[ 50/161] ghc-srpm-macros-0:1.9.2-2.fc4 100% |   8.9 MiB/s |   9.2 KiB |  00m00s
[ 51/161] gnat-srpm-macros-0:6-7.fc42.n 100% |   8.4 MiB/s |   8.6 KiB |  00m00s
[ 52/161] go-srpm-macros-0:3.6.0-7.fc43 100% |  13.5 MiB/s |  27.6 KiB |  00m00s
[ 53/161] kernel-srpm-macros-0:1.0-25.f 100% |   9.6 MiB/s |   9.9 KiB |  00m00s
[ 54/161] lua-srpm-macros-0:1-15.fc42.n 100% |   8.7 MiB/s |   8.9 KiB |  00m00s
[ 55/161] ocaml-srpm-macros-0:10-4.fc42 100% |   4.5 MiB/s |   9.2 KiB |  00m00s
[ 56/161] openblas-srpm-macros-0:2-19.f 100% |   2.5 MiB/s |   7.8 KiB |  00m00s
[ 57/161] package-notes-srpm-macros-0:0 100% |   3.0 MiB/s |   9.3 KiB |  00m00s
[ 58/161] pyproject-srpm-macros-0:1.18. 100% |   6.8 MiB/s |  13.9 KiB |  00m00s
[ 59/161] python-srpm-macros-0:3.13-5.f 100% |  11.3 MiB/s |  23.2 KiB |  00m00s
[ 60/161] qt5-srpm-macros-0:5.15.16-1.f 100% |   4.3 MiB/s |   8.8 KiB |  00m00s
[ 61/161] qt6-srpm-macros-0:6.9.0-2.fc4 100% |   3.1 MiB/s |   9.4 KiB |  00m00s
[ 62/161] rust-srpm-macros-0:26.3-4.fc4 100% |   3.8 MiB/s |  11.7 KiB |  00m00s
[ 63/161] rpm-0:5.99.90-4.fc43.aarch64  100% |  77.5 MiB/s | 555.7 KiB |  00m00s
[ 64/161] tree-sitter-srpm-macros-0:0.2 100% |   3.0 MiB/s |  12.5 KiB |  00m00s
[ 65/161] zig-srpm-macros-0:1-4.fc42.no 100% |   2.7 MiB/s |   8.2 KiB |  00m00s
[ 66/161] zip-0:3.0-43.fc42.aarch64     100% |  85.0 MiB/s | 261.1 KiB |  00m00s
[ 67/161] debugedit-0:5.1-6.fc43.aarch6 100% |  11.0 MiB/s |  78.5 KiB |  00m00s
[ 68/161] elfutils-0:0.192-8.fc42.aarch 100% |  40.2 MiB/s | 535.1 KiB |  00m00s
[ 69/161] binutils-0:2.44-3.fc43.aarch6 100% | 237.3 MiB/s |   6.2 MiB |  00m00s
[ 70/161] elfutils-libelf-0:0.192-8.fc4 100% |  11.3 MiB/s | 207.4 KiB |  00m00s
[ 71/161] libarchive-0:3.7.7-4.fc43.aar 100% |  36.0 MiB/s | 405.7 KiB |  00m00s
[ 72/161] pkgconf-pkg-config-0:2.3.0-2. 100% |   3.2 MiB/s |   9.9 KiB |  00m00s
[ 73/161] libgcc-0:15.1.1-1.fc43.aarch6 100% |  17.9 MiB/s | 110.1 KiB |  00m00s
[ 74/161] libstdc++-0:15.1.1-1.fc43.aar 100% | 117.6 MiB/s | 843.0 KiB |  00m00s
[ 75/161] popt-0:1.19-8.fc42.aarch64    100% |  16.0 MiB/s |  65.4 KiB |  00m00s
[ 76/161] rpm-build-libs-0:5.99.90-4.fc 100% |  28.8 MiB/s | 117.8 KiB |  00m00s
[ 77/161] rpm-libs-0:5.99.90-4.fc43.aar 100% | 122.7 MiB/s | 376.8 KiB |  00m00s
[ 78/161] zstd-0:1.5.7-1.fc43.aarch64   100% | 108.8 MiB/s | 445.5 KiB |  00m00s
[ 79/161] libeconf-0:0.7.6-1.fc43.aarch 100% |  11.5 MiB/s |  35.3 KiB |  00m00s
[ 80/161] audit-libs-0:4.0.3-2.fc42.aar 100% |  24.6 MiB/s | 126.0 KiB |  00m00s
[ 81/161] pam-libs-0:1.7.0-4.fc42.aarch 100% |  14.2 MiB/s |  58.0 KiB |  00m00s
[ 82/161] libsemanage-0:3.8-1.fc42.aarc 100% |  23.2 MiB/s | 118.8 KiB |  00m00s
[ 83/161] libxcrypt-0:4.4.38-7.fc43.aar 100% |  24.2 MiB/s | 124.1 KiB |  00m00s
[ 84/161] libcap-ng-0:0.8.5-4.fc42.aarc 100% |   6.3 MiB/s |  32.3 KiB |  00m00s
[ 85/161] setup-0:2.15.0-23.fc43.noarch 100% |  21.9 MiB/s | 157.2 KiB |  00m00s
[ 86/161] libblkid-0:2.40.4-7.fc43.aarc 100% |  16.8 MiB/s | 120.4 KiB |  00m00s
[ 87/161] libfdisk-0:2.40.4-7.fc43.aarc 100% |  24.6 MiB/s | 151.3 KiB |  00m00s
[ 88/161] libmount-0:2.40.4-7.fc43.aarc 100% |  29.3 MiB/s | 149.8 KiB |  00m00s
[ 89/161] libsmartcols-0:2.40.4-7.fc43. 100% |  19.4 MiB/s |  79.4 KiB |  00m00s
[ 90/161] libuuid-0:2.40.4-7.fc43.aarch 100% |  24.7 MiB/s |  25.3 KiB |  00m00s
[ 91/161] util-linux-core-0:2.40.4-7.fc 100% | 126.9 MiB/s | 519.9 KiB |  00m00s
[ 92/161] zlib-ng-compat-0:2.2.4-2.fc43 100% |  16.1 MiB/s |  65.8 KiB |  00m00s
[ 93/161] xz-libs-1:5.8.1-1.fc43.aarch6 100% |  36.2 MiB/s | 111.3 KiB |  00m00s
[ 94/161] ncurses-base-0:6.5-5.20250125 100% |  21.5 MiB/s |  88.1 KiB |  00m00s
[ 95/161] libsepol-0:3.8-1.fc42.aarch64 100% |  79.1 MiB/s | 323.9 KiB |  00m00s
[ 96/161] ca-certificates-0:2024.2.69_v 100% | 184.6 MiB/s | 945.0 KiB |  00m00s
[ 97/161] crypto-policies-0:20250402-2. 100% |  19.0 MiB/s |  97.3 KiB |  00m00s
[ 98/161] fedora-repos-rawhide-0:43-0.2 100% |   8.6 MiB/s |   8.8 KiB |  00m00s
[ 99/161] fedora-gpg-keys-0:43-0.2.noar 100% |  44.5 MiB/s | 136.6 KiB |  00m00s
[100/161] pcre2-syntax-0:10.45-1.fc43.n 100% |  39.5 MiB/s | 161.7 KiB |  00m00s
[101/161] add-determinism-0:0.6.0-1.fc4 100% | 138.7 MiB/s | 852.0 KiB |  00m00s
[102/161] file-libs-0:5.46-1.fc42.aarch 100% | 165.6 MiB/s | 847.6 KiB |  00m00s
[103/161] curl-0:8.14.0~rc1-1.fc43.aarc 100% |  45.0 MiB/s | 230.2 KiB |  00m00s
[104/161] alternatives-0:1.32-1.fc43.aa 100% |  19.9 MiB/s |  40.8 KiB |  00m00s
[105/161] elfutils-debuginfod-client-0: 100% |  22.5 MiB/s |  46.0 KiB |  00m00s
[106/161] jansson-0:2.14-2.fc42.aarch64 100% |  22.8 MiB/s |  46.8 KiB |  00m00s
[107/161] elfutils-libs-0:0.192-8.fc42. 100% |  84.7 MiB/s | 260.0 KiB |  00m00s
[108/161] libzstd-0:1.5.7-1.fc43.aarch6 100% |  92.2 MiB/s | 283.3 KiB |  00m00s
[109/161] libxml2-0:2.12.10-1.fc43.aarc 100% | 166.0 MiB/s | 679.8 KiB |  00m00s
[110/161] lz4-libs-0:1.10.0-2.fc42.aarc 100% |  19.4 MiB/s |  79.6 KiB |  00m00s
[111/161] pkgconf-0:2.3.0-2.fc42.aarch6 100% |  21.8 MiB/s |  44.7 KiB |  00m00s
[112/161] pkgconf-m4-0:2.3.0-2.fc42.noa 100% |   7.0 MiB/s |  14.2 KiB |  00m00s
[113/161] libgomp-0:15.1.1-1.fc43.aarch 100% |  68.7 MiB/s | 351.9 KiB |  00m00s
[114/161] lua-libs-0:5.4.7-3.fc43.aarch 100% |  25.1 MiB/s | 128.4 KiB |  00m00s
[115/161] glibc-gconv-extra-0:2.41.9000 100% |  34.9 MiB/s |   1.6 MiB |  00m00s
[116/161] rpm-sign-libs-0:5.99.90-4.fc4 100% |   9.3 MiB/s |  28.7 KiB |  00m00s
[117/161] rpm-sequoia-0:1.8.0-1.fc43.aa 100% | 175.1 MiB/s | 896.3 KiB |  00m00s
[118/161] libffi-0:3.4.7-4.fc43.aarch64 100% |   9.5 MiB/s |  38.7 KiB |  00m00s
[119/161] sqlite-libs-0:3.49.0-1.fc43.a 100% | 103.8 MiB/s | 743.9 KiB |  00m00s
[120/161] p11-kit-0:0.25.5-5.fc42.aarch 100% |  76.9 MiB/s | 472.2 KiB |  00m00s
[121/161] json-c-0:0.18-2.fc42.aarch64  100% |  14.6 MiB/s |  44.9 KiB |  00m00s
[122/161] p11-kit-trust-0:0.25.5-5.fc42 100% |  21.3 MiB/s | 131.1 KiB |  00m00s
[123/161] elfutils-default-yama-scope-0 100% |  12.3 MiB/s |  12.6 KiB |  00m00s
[124/161] libpkgconf-0:2.3.0-2.fc42.aar 100% |  18.7 MiB/s |  38.2 KiB |  00m00s
[125/161] ima-evm-utils-libs-0:1.6.2-5. 100% |  28.8 MiB/s |  29.5 KiB |  00m00s
[126/161] libfsverity-0:1.6-2.fc42.aarc 100% |  18.2 MiB/s |  18.7 KiB |  00m00s
[127/161] gnupg2-0:2.4.7-3.fc43.aarch64 100% | 247.4 MiB/s |   2.7 MiB |  00m00s
[128/161] libtasn1-0:4.20.0-1.fc43.aarc 100% |   8.0 MiB/s |  73.7 KiB |  00m00s
[129/161] gnutls-0:3.8.9-5.fc43.aarch64 100% |  95.5 MiB/s |   1.1 MiB |  00m00s
[130/161] libassuan-0:2.5.7-3.fc42.aarc 100% |  10.9 MiB/s |  66.7 KiB |  00m00s
[131/161] libgcrypt-0:1.11.0-5.fc42.aar 100% |  97.9 MiB/s | 501.4 KiB |  00m00s
[132/161] libgpg-error-0:1.55-1.fc43.aa 100% |  59.6 MiB/s | 244.1 KiB |  00m00s
[133/161] npth-0:1.8-2.fc42.aarch64     100% |   8.2 MiB/s |  25.2 KiB |  00m00s
[134/161] libksba-0:1.6.7-3.fc42.aarch6 100% |  38.8 MiB/s | 159.0 KiB |  00m00s
[135/161] tpm2-tss-0:4.1.3-7.fc43.aarch 100% |  97.4 MiB/s | 398.9 KiB |  00m00s
[136/161] libidn2-0:2.3.8-1.fc43.aarch6 100% |  42.6 MiB/s | 174.7 KiB |  00m00s
[137/161] libunistring-0:1.1-9.fc42.aar 100% | 105.3 MiB/s | 539.4 KiB |  00m00s
[138/161] nettle-0:3.10.1-1.fc43.aarch6 100% |  83.0 MiB/s | 424.7 KiB |  00m00s
[139/161] libusb1-0:1.0.28-2.fc43.aarch 100% |  15.1 MiB/s |  77.1 KiB |  00m00s
[140/161] cyrus-sasl-lib-0:2.1.28-30.fc 100% | 151.6 MiB/s | 776.2 KiB |  00m00s
[141/161] perl-srpm-macros-0:1-58.fc43. 100% | 750.4 KiB/s |   9.0 KiB |  00m00s
[142/161] libevent-0:2.1.12-15.fc42.aar 100% |  62.2 MiB/s | 254.7 KiB |  00m00s
[143/161] libtool-ltdl-0:2.5.4-4.fc42.a 100% |  34.6 MiB/s |  35.4 KiB |  00m00s
[144/161] gdbm-libs-1:1.23-9.fc42.aarch 100% |  54.8 MiB/s |  56.2 KiB |  00m00s
[145/161] fedora-release-0:43-0.15.noar 100% |  14.9 MiB/s |  15.3 KiB |  00m00s
[146/161] openldap-0:2.6.9-6.fc43.aarch 100% |  17.5 MiB/s | 251.0 KiB |  00m00s
[147/161] systemd-standalone-sysusers-0 100% |  41.6 MiB/s | 127.7 KiB |  00m00s
[148/161] xxhash-libs-0:0.8.3-2.fc42.aa 100% |  17.0 MiB/s |  34.8 KiB |  00m00s
[149/161] fedora-release-identity-basic 100% |   2.6 MiB/s |  16.0 KiB |  00m00s
[150/161] gdb-minimal-0:16.3-1.fc43.aar 100% | 297.6 MiB/s |   4.2 MiB |  00m00s
[151/161] libcurl-0:8.14.0~rc1-1.fc43.a 100% |  28.9 MiB/s | 384.6 KiB |  00m00s
[152/161] krb5-libs-0:1.21.3-5.fc42.aar 100% |  81.9 MiB/s | 754.7 KiB |  00m00s
[153/161] libbrotli-0:1.1.0-6.fc42.aarc 100% |  83.1 MiB/s | 340.5 KiB |  00m00s
[154/161] libnghttp2-0:1.65.0-1.fc43.aa 100% |  10.1 MiB/s |  72.6 KiB |  00m00s
[155/161] libpsl-0:0.21.5-5.fc42.aarch6 100% |  12.5 MiB/s |  64.2 KiB |  00m00s
[156/161] libssh-0:0.11.1-4.fc42.aarch6 100% |  56.2 MiB/s | 230.3 KiB |  00m00s
[157/161] keyutils-libs-0:1.6.3-5.fc42. 100% |   7.8 MiB/s |  31.8 KiB |  00m00s
[158/161] libcom_err-0:1.47.2-3.fc42.aa 100% |   6.5 MiB/s |  26.8 KiB |  00m00s
[159/161] libverto-0:0.3.2-10.fc42.aarc 100% |   2.3 MiB/s |  20.8 KiB |  00m00s
[160/161] libssh-config-0:0.11.1-4.fc42 100% |   1.8 MiB/s |   9.0 KiB |  00m00s
[161/161] publicsuffix-list-dafsa-0:202 100% |   9.6 MiB/s |  58.8 KiB |  00m00s
--------------------------------------------------------------------------------
[161/161] Total                         100% | 109.8 MiB/s |  57.1 MiB |  00m01s
Running transaction
Importing OpenPGP key 0x31645531:
 UserID     : "Fedora (43) <fedora-43-primary@fedoraproject.org>"
 Fingerprint: C6E7F081CF80E13146676E88829B606631645531
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-43-primary
The key was successfully imported.
Importing OpenPGP key 0x31645531:
 UserID     : "Fedora (43) <fedora-43-primary@fedoraproject.org>"
 Fingerprint: C6E7F081CF80E13146676E88829B606631645531
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-43-primary
The key was successfully imported.
Importing OpenPGP key 0x105EF944:
 UserID     : "Fedora (42) <fedora-42-primary@fedoraproject.org>"
 Fingerprint: B0F4950458F69E1150C6C5EDC8AC4916105EF944
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-42-primary
The key was successfully imported.
Importing OpenPGP key 0x6D9F90A6:
 UserID     : "Fedora (44) <fedora-44-primary@fedoraproject.org>"
 Fingerprint: 36F612DCF27F7D1A48A835E4DBFCF71C6D9F90A6
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-44-primary
The key was successfully imported.
[  1/163] Verify package files          100% |   1.4 KiB/s | 161.0   B |  00m00s
>>> Running pre-transaction scriptlet: filesystem-0:3.18-40.fc43.aarch64        
>>> Finished pre-transaction scriptlet: filesystem-0:3.18-40.fc43.aarch64       
>>> [RPM] /var/lib/mock/fedora-rawhide-aarch64-1746538555.779123/root/var/cache/
[  2/163] Prepare transaction           100% |   2.5 KiB/s | 161.0   B |  00m00s
[  3/163] Installing libgcc-0:15.1.1-1. 100% | 109.3 MiB/s | 223.9 KiB |  00m00s
[  4/163] Installing libssh-config-0:0. 100% |   0.0   B/s | 816.0   B |  00m00s
[  5/163] Installing publicsuffix-list- 100% |  67.6 MiB/s |  69.2 KiB |  00m00s
[  6/163] Installing fedora-release-ide 100% | 898.4 KiB/s | 920.0   B |  00m00s
[  7/163] Installing fedora-gpg-keys-0: 100% |  28.6 MiB/s | 175.9 KiB |  00m00s
[  8/163] Installing fedora-repos-rawhi 100% |   0.0   B/s |   2.4 KiB |  00m00s
[  9/163] Installing fedora-repos-0:43- 100% |   5.6 MiB/s |   5.7 KiB |  00m00s
[ 10/163] Installing fedora-release-com 100% |  12.1 MiB/s |  24.7 KiB |  00m00s
[ 11/163] Installing fedora-release-0:4 100% |  13.5 KiB/s | 124.0   B |  00m00s
>>> Running sysusers scriptlet: setup-0:2.15.0-23.fc43.noarch                   
>>> Finished sysusers scriptlet: setup-0:2.15.0-23.fc43.noarch                  
>>> Scriptlet output:                                                           
>>> Creating group 'adm' with GID 4.                                            
>>> Creating group 'audio' with GID 63.                                         
>>> Creating group 'cdrom' with GID 11.                                         
>>> Creating group 'clock' with GID 103.                                        
>>> Creating group 'dialout' with GID 18.                                       
>>> Creating group 'disk' with GID 6.                                           
>>> Creating group 'floppy' with GID 19.                                        
>>> Creating group 'ftp' with GID 50.                                           
>>> Creating group 'games' with GID 20.                                         
>>> Creating group 'input' with GID 104.                                        
>>> Creating group 'kmem' with GID 9.                                           
>>> Creating group 'kvm' with GID 36.                                           
>>> Creating group 'lock' with GID 54.                                          
>>> Creating group 'lp' with GID 7.                                             
>>> Creating group 'mail' with GID 12.                                          
>>> Creating group 'man' with GID 15.                                           
>>> Creating group 'mem' with GID 8.                                            
>>> Creating group 'nobody' with GID 65534.                                     
>>> Creating group 'render' with GID 105.                                       
>>> Creating group 'root' with GID 0.                                           
>>> Creating group 'sgx' with GID 106.                                          
>>> Creating group 'sys' with GID 3.                                            
>>> Creating group 'tape' with GID 33.                                          
>>> Creating group 'tty' with GID 5.                                            
>>> Creating group 'users' with GID 100.                                        
>>> Creating group 'utmp' with GID 22.                                          
>>> Creating group 'video' with GID 39.                                         
>>> Creating group 'wheel' with GID 10.                                         
>>> Creating user 'adm' (adm) with UID 3 and GID 4.                             
>>> Creating group 'bin' with GID 1.                                            
>>> Creating user 'bin' (bin) with UID 1 and GID 1.                             
>>> Creating group 'daemon' with GID 2.                                         
>>> Creating user 'daemon' (daemon) with UID 2 and GID 2.                       
>>> Creating user 'ftp' (FTP User) with UID 14 and GID 50.                      
>>> Creating user 'games' (games) with UID 12 and GID 100.                      
>>> Creating user 'halt' (halt) with UID 7 and GID 0.                           
>>> Creating user 'lp' (lp) with UID 4 and GID 7.                               
>>> Creating user 'mail' (mail) with UID 8 and GID 12.                          
>>> Creating user 'nobody' (Kernel Overflow User) with UID 65534 and GID 65534. 
>>> Creating user 'operator' (operator) with UID 11 and GID 0.                  
>>> Creating user 'root' (Super User) with UID 0 and GID 0.                     
>>> Creating user 'shutdown' (shutdown) with UID 6 and GID 0.                   
>>> Creating user 'sync' (sync) with UID 5 and GID 0.                           
>>>                                                                             
[ 12/163] Installing setup-0:2.15.0-23. 100% |  35.7 MiB/s | 730.3 KiB |  00m00s
>>> [RPM] /etc/hosts created as /etc/hosts.rpmnew                               
[ 13/163] Installing filesystem-0:3.18- 100% |   1.8 MiB/s | 212.4 KiB |  00m00s
[ 14/163] Installing perl-srpm-macros-0 100% |   1.1 MiB/s |   1.1 KiB |  00m00s
[ 15/163] Installing pkgconf-m4-0:2.3.0 100% |  14.5 MiB/s |  14.8 KiB |  00m00s
[ 16/163] Installing pcre2-syntax-0:10. 100% | 135.0 MiB/s | 276.4 KiB |  00m00s
[ 17/163] Installing ncurses-base-0:6.5 100% |  49.1 MiB/s | 352.2 KiB |  00m00s
[ 18/163] Installing bash-0:5.2.37-3.fc 100% | 178.0 MiB/s |   8.2 MiB |  00m00s
[ 19/163] Installing glibc-common-0:2.4 100% |  55.2 MiB/s |   1.3 MiB |  00m00s
[ 20/163] Installing glibc-gconv-extra- 100% | 365.9 MiB/s |  18.7 MiB |  00m00s
[ 21/163] Installing glibc-0:2.41.9000- 100% | 136.4 MiB/s |   6.3 MiB |  00m00s
[ 22/163] Installing ncurses-libs-0:6.5 100% | 207.9 MiB/s |   1.2 MiB |  00m00s
[ 23/163] Installing glibc-minimal-lang 100% |   0.0   B/s | 124.0   B |  00m00s
[ 24/163] Installing zlib-ng-compat-0:2 100% | 131.1 MiB/s | 134.2 KiB |  00m00s
[ 25/163] Installing bzip2-libs-0:1.0.8 100% |  72.0 MiB/s |  73.7 KiB |  00m00s
[ 26/163] Installing libstdc++-0:15.1.1 100% | 307.2 MiB/s |   2.8 MiB |  00m00s
[ 27/163] Installing xz-libs-1:5.8.1-1. 100% | 197.9 MiB/s | 202.6 KiB |  00m00s
[ 28/163] Installing gmp-1:6.3.0-3.fc43 100% | 214.9 MiB/s | 660.1 KiB |  00m00s
[ 29/163] Installing libuuid-0:2.40.4-7 100% |  68.9 MiB/s |  70.5 KiB |  00m00s
[ 30/163] Installing readline-0:8.2-13. 100% | 183.3 MiB/s | 563.2 KiB |  00m00s
[ 31/163] Installing popt-0:1.19-8.fc42 100% |  37.0 MiB/s | 151.4 KiB |  00m00s
[ 32/163] Installing libblkid-0:2.40.4- 100% | 142.3 MiB/s | 291.5 KiB |  00m00s
[ 33/163] Installing libxcrypt-0:4.4.38 100% | 134.4 MiB/s | 275.2 KiB |  00m00s
[ 34/163] Installing libzstd-0:1.5.7-1. 100% | 217.8 MiB/s | 669.0 KiB |  00m00s
[ 35/163] Installing elfutils-libelf-0: 100% | 297.4 MiB/s |   1.2 MiB |  00m00s
[ 36/163] Installing libgpg-error-0:1.5 100% |  41.5 MiB/s | 977.1 KiB |  00m00s
[ 37/163] Installing libattr-0:2.5.2-5. 100% |  66.5 MiB/s |  68.0 KiB |  00m00s
[ 38/163] Installing libacl-0:2.3.2-3.f 100% |  65.5 MiB/s |  67.1 KiB |  00m00s
[ 39/163] Installing libtasn1-0:4.20.0- 100% | 108.5 MiB/s | 222.2 KiB |  00m00s
[ 40/163] Installing libunistring-0:1.1 100% | 291.0 MiB/s |   1.7 MiB |  00m00s
[ 41/163] Installing libidn2-0:2.3.8-1. 100% |  46.1 MiB/s | 566.7 KiB |  00m00s
[ 42/163] Installing crypto-policies-0: 100% |  20.3 MiB/s | 166.6 KiB |  00m00s
[ 43/163] Installing dwz-0:0.15-9.fc42. 100% |  15.1 MiB/s | 323.9 KiB |  00m00s
[ 44/163] Installing mpfr-0:4.2.2-1.fc4 100% | 184.9 MiB/s | 757.2 KiB |  00m00s
[ 45/163] Installing gawk-0:5.3.2-1.fc4 100% |  92.2 MiB/s |   2.6 MiB |  00m00s
[ 46/163] Installing unzip-0:6.0-66.fc4 100% |  23.1 MiB/s | 473.7 KiB |  00m00s
[ 47/163] Installing file-libs-0:5.46-1 100% | 516.6 MiB/s |  11.9 MiB |  00m00s
[ 48/163] Installing file-0:5.46-1.fc42 100% |   7.3 MiB/s | 141.7 KiB |  00m00s
[ 49/163] Installing pcre2-0:10.45-1.fc 100% | 232.7 MiB/s | 715.0 KiB |  00m00s
[ 50/163] Installing grep-0:3.12-1.fc43 100% |  41.5 MiB/s |   1.0 MiB |  00m00s
[ 51/163] Installing xz-1:5.8.1-1.fc43. 100% |  54.4 MiB/s |   1.4 MiB |  00m00s
[ 52/163] Installing libeconf-0:0.7.6-1 100% |  80.4 MiB/s |  82.3 KiB |  00m00s
[ 53/163] Installing libcap-ng-0:0.8.5- 100% | 159.0 MiB/s | 162.8 KiB |  00m00s
[ 54/163] Installing audit-libs-0:4.0.3 100% | 203.7 MiB/s | 417.2 KiB |  00m00s
[ 55/163] Installing pam-libs-0:1.7.0-4 100% | 110.0 MiB/s | 225.3 KiB |  00m00s
[ 56/163] Installing libcap-0:2.76-1.fc 100% |  25.1 MiB/s | 513.9 KiB |  00m00s
[ 57/163] Installing systemd-libs-0:257 100% | 292.0 MiB/s |   2.3 MiB |  00m00s
[ 58/163] Installing libsmartcols-0:2.4 100% | 220.2 MiB/s | 225.4 KiB |  00m00s
[ 59/163] Installing libsepol-0:3.8-1.f 100% | 264.0 MiB/s | 810.9 KiB |  00m00s
[ 60/163] Installing libselinux-0:3.8-1 100% |  98.8 MiB/s | 202.3 KiB |  00m00s
[ 61/163] Installing findutils-1:4.10.0 100% |  71.1 MiB/s |   1.9 MiB |  00m00s
[ 62/163] Installing sed-0:4.9-4.fc42.a 100% |  37.4 MiB/s | 881.4 KiB |  00m00s
[ 63/163] Installing libmount-0:2.40.4- 100% | 174.3 MiB/s | 356.9 KiB |  00m00s
[ 64/163] Installing alternatives-0:1.3 100% |   5.0 MiB/s |  91.8 KiB |  00m00s
[ 65/163] Installing lz4-libs-0:1.10.0- 100% |  96.9 MiB/s | 198.5 KiB |  00m00s
[ 66/163] Installing lua-libs-0:5.4.7-3 100% | 161.2 MiB/s | 330.1 KiB |  00m00s
[ 67/163] Installing sqlite-libs-0:3.49 100% | 250.2 MiB/s |   1.5 MiB |  00m00s
[ 68/163] Installing libffi-0:3.4.7-4.f 100% |  76.2 MiB/s | 156.1 KiB |  00m00s
[ 69/163] Installing p11-kit-0:0.25.5-5 100% |  79.8 MiB/s |   2.4 MiB |  00m00s
[ 70/163] Installing p11-kit-trust-0:0. 100% |  15.7 MiB/s | 465.0 KiB |  00m00s
[ 71/163] Installing json-c-0:0.18-2.fc 100% |  68.3 MiB/s | 139.9 KiB |  00m00s
[ 72/163] Installing zstd-0:1.5.7-1.fc4 100% |  62.7 MiB/s |   1.5 MiB |  00m00s
[ 73/163] Installing util-linux-core-0: 100% |  82.3 MiB/s |   2.4 MiB |  00m00s
[ 74/163] Installing tar-2:1.35-5.fc42. 100% | 103.6 MiB/s |   3.0 MiB |  00m00s
[ 75/163] Installing libsemanage-0:3.8- 100% | 176.7 MiB/s | 361.8 KiB |  00m00s
[ 76/163] Installing systemd-standalone 100% |  17.0 MiB/s | 329.9 KiB |  00m00s
[ 77/163] Installing libusb1-0:1.0.28-2 100% |  88.1 MiB/s | 180.3 KiB |  00m00s
[ 78/163] Installing zip-0:3.0-43.fc42. 100% |  35.6 MiB/s | 766.4 KiB |  00m00s
[ 79/163] Installing libpsl-0:0.21.5-5. 100% | 130.5 MiB/s | 133.6 KiB |  00m00s
[ 80/163] Installing libassuan-0:2.5.7- 100% | 106.3 MiB/s | 217.7 KiB |  00m00s
[ 81/163] Installing libgcrypt-0:1.11.0 100% | 226.0 MiB/s |   1.1 MiB |  00m00s
[ 82/163] Installing libksba-0:1.6.7-3. 100% | 195.8 MiB/s | 401.0 KiB |  00m00s
[ 83/163] Installing libfdisk-0:2.40.4- 100% | 205.0 MiB/s | 419.9 KiB |  00m00s
[ 84/163] Installing nettle-0:3.10.1-1. 100% | 187.6 MiB/s | 768.4 KiB |  00m00s
[ 85/163] Installing gnutls-0:3.8.9-5.f 100% | 285.8 MiB/s |   3.4 MiB |  00m00s
[ 86/163] Installing libxml2-0:2.12.10- 100% |  78.8 MiB/s |   1.9 MiB |  00m00s
[ 87/163] Installing bzip2-0:1.0.8-20.f 100% |   9.0 MiB/s | 175.8 KiB |  00m00s
[ 88/163] Installing add-determinism-0: 100% |  86.6 MiB/s |   2.2 MiB |  00m00s
[ 89/163] Installing build-reproducibil 100% |   1.0 MiB/s |   1.0 KiB |  00m00s
[ 90/163] Installing cpio-0:2.15-2.fc41 100% |  53.1 MiB/s |   1.2 MiB |  00m00s
[ 91/163] Installing diffutils-0:3.12-2 100% |  64.9 MiB/s |   1.6 MiB |  00m00s
[ 92/163] Installing ed-0:1.21-2.fc42.a 100% |   8.1 MiB/s | 156.8 KiB |  00m00s
[ 93/163] Installing patch-0:2.8-1.fc43 100% |  13.6 MiB/s | 264.1 KiB |  00m00s
[ 94/163] Installing jansson-0:2.14-2.f 100% |  92.3 MiB/s |  94.5 KiB |  00m00s
[ 95/163] Installing libgomp-0:15.1.1-1 100% | 251.7 MiB/s | 515.4 KiB |  00m00s
[ 96/163] Installing libpkgconf-0:2.3.0 100% | 132.0 MiB/s | 135.1 KiB |  00m00s
[ 97/163] Installing pkgconf-0:2.3.0-2. 100% |   5.9 MiB/s | 114.9 KiB |  00m00s
[ 98/163] Installing pkgconf-pkg-config 100% |  98.5 KiB/s |   1.8 KiB |  00m00s
[ 99/163] Installing npth-0:1.8-2.fc42. 100% |  92.4 MiB/s |  94.6 KiB |  00m00s
[100/163] Installing libtool-ltdl-0:2.5 100% |  92.9 MiB/s |  95.1 KiB |  00m00s
[101/163] Installing gdbm-libs-1:1.23-9 100% | 115.1 MiB/s | 235.7 KiB |  00m00s
[102/163] Installing cyrus-sasl-lib-0:2 100% |  93.0 MiB/s |   2.4 MiB |  00m00s
[103/163] Installing xxhash-libs-0:0.8. 100% |  85.3 MiB/s |  87.4 KiB |  00m00s
[104/163] Installing libbrotli-0:1.1.0- 100% | 222.6 MiB/s | 911.7 KiB |  00m00s
[105/163] Installing libnghttp2-0:1.65. 100% | 194.4 MiB/s | 199.0 KiB |  00m00s
[106/163] Installing keyutils-libs-0:1. 100% |  97.4 MiB/s |  99.8 KiB |  00m00s
[107/163] Installing libcom_err-0:1.47. 100% | 109.5 MiB/s | 112.2 KiB |  00m00s
[108/163] Installing libverto-0:0.3.2-1 100% |  69.5 MiB/s |  71.2 KiB |  00m00s
[109/163] Installing filesystem-srpm-ma 100% |  38.0 MiB/s |  38.9 KiB |  00m00s
[110/163] Installing elfutils-default-y 100% | 291.9 KiB/s |   2.0 KiB |  00m00s
[111/163] Installing elfutils-libs-0:0. 100% | 182.7 MiB/s | 748.2 KiB |  00m00s
[112/163] Installing rust-srpm-macros-0 100% |   5.4 MiB/s |   5.6 KiB |  00m00s
[113/163] Installing qt6-srpm-macros-0: 100% |   0.0   B/s | 740.0   B |  00m00s
[114/163] Installing qt5-srpm-macros-0: 100% |   0.0   B/s | 776.0   B |  00m00s
[115/163] Installing package-notes-srpm 100% |   0.0   B/s |   2.0 KiB |  00m00s
[116/163] Installing openblas-srpm-macr 100% |   0.0   B/s | 392.0   B |  00m00s
[117/163] Installing ocaml-srpm-macros- 100% |   0.0   B/s |   2.2 KiB |  00m00s
[118/163] Installing kernel-srpm-macros 100% |   0.0   B/s |   2.3 KiB |  00m00s
[119/163] Installing gnat-srpm-macros-0 100% |   0.0   B/s |   1.3 KiB |  00m00s
[120/163] Installing ghc-srpm-macros-0: 100% |   0.0   B/s |   1.0 KiB |  00m00s
[121/163] Installing fpc-srpm-macros-0: 100% |   0.0   B/s | 420.0   B |  00m00s
[122/163] Installing ansible-srpm-macro 100% |  35.4 MiB/s |  36.2 KiB |  00m00s
[123/163] Installing coreutils-common-0 100% | 275.4 MiB/s |  11.3 MiB |  00m00s
[124/163] Installing openssl-libs-1:3.5 100% | 294.3 MiB/s |   7.4 MiB |  00m00s
[125/163] Installing coreutils-0:9.7-1. 100% | 157.0 MiB/s |   8.2 MiB |  00m00s
[126/163] Installing ca-certificates-0: 100% |   1.4 MiB/s |   2.4 MiB |  00m02s
[127/163] Installing libarchive-0:3.7.7 100% | 178.2 MiB/s | 912.6 KiB |  00m00s
[128/163] Installing krb5-libs-0:1.21.3 100% | 133.3 MiB/s |   2.5 MiB |  00m00s
>>> Running sysusers scriptlet: tpm2-tss-0:4.1.3-7.fc43.aarch64                 
>>> Finished sysusers scriptlet: tpm2-tss-0:4.1.3-7.fc43.aarch64                
>>> Scriptlet output:                                                           
>>> Creating group 'tss' with GID 59.                                           
>>> Creating user 'tss' (Account used for TPM access) with UID 59 and GID 59.   
>>>                                                                             
[129/163] Installing tpm2-tss-0:4.1.3-7 100% | 215.9 MiB/s |   2.2 MiB |  00m00s
[130/163] Installing ima-evm-utils-libs 100% |  91.8 MiB/s |  94.0 KiB |  00m00s
[131/163] Installing libssh-0:0.11.1-4. 100% | 191.2 MiB/s | 587.5 KiB |  00m00s
[132/163] Installing gzip-0:1.13-3.fc42 100% |  19.1 MiB/s | 430.2 KiB |  00m00s
[133/163] Installing rpm-sequoia-0:1.8. 100% | 295.4 MiB/s |   2.4 MiB |  00m00s
[134/163] Installing rpm-libs-0:5.99.90 100% | 243.4 MiB/s | 996.9 KiB |  00m00s
[135/163] Installing libfsverity-0:1.6- 100% |  67.8 MiB/s |  69.4 KiB |  00m00s
[136/163] Installing libevent-0:2.1.12- 100% | 271.3 MiB/s |   1.1 MiB |  00m00s
[137/163] Installing openldap-0:2.6.9-6 100% | 171.2 MiB/s | 701.0 KiB |  00m00s
[138/163] Installing libcurl-0:8.14.0~r 100% | 208.0 MiB/s | 852.1 KiB |  00m00s
[139/163] Installing elfutils-debuginfo 100% |   7.1 MiB/s | 146.2 KiB |  00m00s
[140/163] Installing binutils-0:2.44-3. 100% | 251.1 MiB/s |  29.4 MiB |  00m00s
[141/163] Installing elfutils-0:0.192-8 100% | 108.3 MiB/s |   3.1 MiB |  00m00s
[142/163] Installing gdb-minimal-0:16.3 100% | 206.0 MiB/s |  13.0 MiB |  00m00s
[143/163] Installing debugedit-0:5.1-6. 100% |  12.1 MiB/s | 247.3 KiB |  00m00s
[144/163] Installing curl-0:8.14.0~rc1- 100% |  15.4 MiB/s | 472.0 KiB |  00m00s
[145/163] Installing rpm-0:5.99.90-4.fc 100% |  55.0 MiB/s |   2.8 MiB |  00m00s
[146/163] Installing efi-srpm-macros-0: 100% |  40.2 MiB/s |  41.1 KiB |  00m00s
[147/163] Installing lua-srpm-macros-0: 100% |   1.9 MiB/s |   1.9 KiB |  00m00s
[148/163] Installing tree-sitter-srpm-m 100% |   8.4 MiB/s |   8.6 KiB |  00m00s
[149/163] Installing zig-srpm-macros-0: 100% |   1.6 MiB/s |   1.7 KiB |  00m00s
[150/163] Installing gnupg2-0:2.4.7-3.f 100% | 173.5 MiB/s |  10.4 MiB |  00m00s
[151/163] Installing rpm-sign-libs-0:5. 100% |  67.0 MiB/s |  68.6 KiB |  00m00s
[152/163] Installing rpm-build-libs-0:5 100% | 129.4 MiB/s | 264.9 KiB |  00m00s
[153/163] Installing rpm-build-0:5.99.9 100% |  28.0 MiB/s | 601.9 KiB |  00m00s
[154/163] Installing pyproject-srpm-mac 100% |   2.4 MiB/s |   2.5 KiB |  00m00s
[155/163] Installing redhat-rpm-config- 100% |  62.6 MiB/s | 192.3 KiB |  00m00s
[156/163] Installing forge-srpm-macros- 100% |  39.3 MiB/s |  40.3 KiB |  00m00s
[157/163] Installing fonts-srpm-macros- 100% |  55.7 MiB/s |  57.0 KiB |  00m00s
[158/163] Installing go-srpm-macros-0:3 100% |  60.5 MiB/s |  62.0 KiB |  00m00s
[159/163] Installing python-srpm-macros 100% |  25.9 MiB/s |  53.0 KiB |  00m00s
[160/163] Installing util-linux-0:2.40. 100% | 122.7 MiB/s |   6.6 MiB |  00m00s
[161/163] Installing which-0:2.23-1.fc4 100% |   5.8 MiB/s | 125.6 KiB |  00m00s
[162/163] Installing shadow-utils-2:4.1 100% |  95.5 MiB/s |   4.6 MiB |  00m00s
[163/163] Installing info-0:7.2-3.fc42. 100% | 191.1 KiB/s | 422.0 KiB |  00m02s
Warning: skipped OpenPGP checks for 2 packages from repository: copr_base
Complete!
Finish: installing minimal buildroot with dnf5
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
INFO: add-determinism-0.6.0-1.fc43.aarch64
alternatives-1.32-1.fc43.aarch64
ansible-srpm-macros-1-17.1.fc42.noarch
audit-libs-4.0.3-2.fc42.aarch64
bash-5.2.37-3.fc43.aarch64
binutils-2.44-3.fc43.aarch64
build-reproducibility-srpm-macros-0.6.0-1.fc43.noarch
bzip2-1.0.8-20.fc42.aarch64
bzip2-libs-1.0.8-20.fc42.aarch64
ca-certificates-2024.2.69_v8.0.401-5.fc42.noarch
coreutils-9.7-1.fc43.aarch64
coreutils-common-9.7-1.fc43.aarch64
cpio-2.15-2.fc41.aarch64
crypto-policies-20250402-2.git86c0178.fc43.noarch
curl-8.14.0~rc1-1.fc43.aarch64
cyrus-sasl-lib-2.1.28-30.fc42.aarch64
debugedit-5.1-6.fc43.aarch64
diffutils-3.12-2.fc43.aarch64
dwz-0.15-9.fc42.aarch64
ed-1.21-2.fc42.aarch64
efi-srpm-macros-6-3.fc43.noarch
elfutils-0.192-8.fc42.aarch64
elfutils-debuginfod-client-0.192-8.fc42.aarch64
elfutils-default-yama-scope-0.192-8.fc42.noarch
elfutils-libelf-0.192-8.fc42.aarch64
elfutils-libs-0.192-8.fc42.aarch64
fedora-gpg-keys-43-0.2.noarch
fedora-release-43-0.15.noarch
fedora-release-common-43-0.15.noarch
fedora-release-identity-basic-43-0.15.noarch
fedora-repos-43-0.2.noarch
fedora-repos-rawhide-43-0.2.noarch
file-5.46-1.fc42.aarch64
file-libs-5.46-1.fc42.aarch64
filesystem-3.18-40.fc43.aarch64
filesystem-srpm-macros-3.18-40.fc43.noarch
findutils-4.10.0-5.fc42.aarch64
fonts-srpm-macros-2.0.5-21.fc42.noarch
forge-srpm-macros-0.4.0-2.fc42.noarch
fpc-srpm-macros-1.3-14.fc42.noarch
gawk-5.3.2-1.fc43.aarch64
gdb-minimal-16.3-1.fc43.aarch64
gdbm-libs-1.23-9.fc42.aarch64
ghc-srpm-macros-1.9.2-2.fc42.noarch
glibc-2.41.9000-12.fc43.aarch64
glibc-common-2.41.9000-12.fc43.aarch64
glibc-gconv-extra-2.41.9000-12.fc43.aarch64
glibc-minimal-langpack-2.41.9000-12.fc43.aarch64
gmp-6.3.0-3.fc43.aarch64
gnat-srpm-macros-6-7.fc42.noarch
gnupg2-2.4.7-3.fc43.aarch64
gnutls-3.8.9-5.fc43.aarch64
go-srpm-macros-3.6.0-7.fc43.noarch
gpg-pubkey-36f612dcf27f7d1a48a835e4dbfcf71c6d9f90a6-6786af3b
gpg-pubkey-b0f4950458f69e1150c6c5edc8ac4916105ef944-65ca83d1
gpg-pubkey-c6e7f081cf80e13146676e88829b606631645531-66b6dccf
grep-3.12-1.fc43.aarch64
gzip-1.13-3.fc42.aarch64
ima-evm-utils-libs-1.6.2-5.fc43.aarch64
info-7.2-3.fc42.aarch64
jansson-2.14-2.fc42.aarch64
json-c-0.18-2.fc42.aarch64
kernel-srpm-macros-1.0-25.fc42.noarch
keyutils-libs-1.6.3-5.fc42.aarch64
krb5-libs-1.21.3-5.fc42.aarch64
libacl-2.3.2-3.fc42.aarch64
libarchive-3.7.7-4.fc43.aarch64
libassuan-2.5.7-3.fc42.aarch64
libattr-2.5.2-5.fc42.aarch64
libblkid-2.40.4-7.fc43.aarch64
libbrotli-1.1.0-6.fc42.aarch64
libcap-2.76-1.fc43.aarch64
libcap-ng-0.8.5-4.fc42.aarch64
libcom_err-1.47.2-3.fc42.aarch64
libcurl-8.14.0~rc1-1.fc43.aarch64
libeconf-0.7.6-1.fc43.aarch64
libevent-2.1.12-15.fc42.aarch64
libfdisk-2.40.4-7.fc43.aarch64
libffi-3.4.7-4.fc43.aarch64
libfsverity-1.6-2.fc42.aarch64
libgcc-15.1.1-1.fc43.aarch64
libgcrypt-1.11.0-5.fc42.aarch64
libgomp-15.1.1-1.fc43.aarch64
libgpg-error-1.55-1.fc43.aarch64
libidn2-2.3.8-1.fc43.aarch64
libksba-1.6.7-3.fc42.aarch64
libmount-2.40.4-7.fc43.aarch64
libnghttp2-1.65.0-1.fc43.aarch64
libpkgconf-2.3.0-2.fc42.aarch64
libpsl-0.21.5-5.fc42.aarch64
libselinux-3.8-1.fc42.aarch64
libsemanage-3.8-1.fc42.aarch64
libsepol-3.8-1.fc42.aarch64
libsmartcols-2.40.4-7.fc43.aarch64
libssh-0.11.1-4.fc42.aarch64
libssh-config-0.11.1-4.fc42.noarch
libstdc++-15.1.1-1.fc43.aarch64
libtasn1-4.20.0-1.fc43.aarch64
libtool-ltdl-2.5.4-4.fc42.aarch64
libunistring-1.1-9.fc42.aarch64
libusb1-1.0.28-2.fc43.aarch64
libuuid-2.40.4-7.fc43.aarch64
libverto-0.3.2-10.fc42.aarch64
libxcrypt-4.4.38-7.fc43.aarch64
libxml2-2.12.10-1.fc43.aarch64
libzstd-1.5.7-1.fc43.aarch64
lua-libs-5.4.7-3.fc43.aarch64
lua-srpm-macros-1-15.fc42.noarch
lz4-libs-1.10.0-2.fc42.aarch64
mpfr-4.2.2-1.fc43.aarch64
ncurses-base-6.5-5.20250125.fc42.noarch
ncurses-libs-6.5-5.20250125.fc42.aarch64
nettle-3.10.1-1.fc43.aarch64
npth-1.8-2.fc42.aarch64
ocaml-srpm-macros-10-4.fc42.noarch
openblas-srpm-macros-2-19.fc42.noarch
openldap-2.6.9-6.fc43.aarch64
openssl-libs-3.5.0-3.fc43.aarch64
p11-kit-0.25.5-5.fc42.aarch64
p11-kit-trust-0.25.5-5.fc42.aarch64
package-notes-srpm-macros-0.5-13.fc42.noarch
pam-libs-1.7.0-4.fc42.aarch64
patch-2.8-1.fc43.aarch64
pcre2-10.45-1.fc43.aarch64
pcre2-syntax-10.45-1.fc43.noarch
perl-srpm-macros-1-58.fc43.noarch
pkgconf-2.3.0-2.fc42.aarch64
pkgconf-m4-2.3.0-2.fc42.noarch
pkgconf-pkg-config-2.3.0-2.fc42.aarch64
popt-1.19-8.fc42.aarch64
publicsuffix-list-dafsa-20250116-1.fc42.noarch
pyproject-srpm-macros-1.18.1-1.fc43.noarch
python-srpm-macros-3.13-5.fc43.noarch
qt5-srpm-macros-5.15.16-1.fc43.noarch
qt6-srpm-macros-6.9.0-2.fc43.noarch
readline-8.2-13.fc43.aarch64
redhat-rpm-config-343-4.fc43.noarch
rpm-5.99.90-4.fc43.aarch64
rpm-build-5.99.90-4.fc43.aarch64
rpm-build-libs-5.99.90-4.fc43.aarch64
rpm-libs-5.99.90-4.fc43.aarch64
rpm-sequoia-1.8.0-1.fc43.aarch64
rpm-sign-libs-5.99.90-4.fc43.aarch64
rust-srpm-macros-26.3-4.fc42.noarch
sed-4.9-4.fc42.aarch64
setup-2.15.0-23.fc43.noarch
shadow-utils-4.17.4-1.fc43.aarch64
sqlite-libs-3.49.0-1.fc43.aarch64
systemd-libs-257.5-2.fc43.aarch64
systemd-standalone-sysusers-257.5-2.fc43.aarch64
tar-1.35-5.fc42.aarch64
tpm2-tss-4.1.3-7.fc43.aarch64
tree-sitter-srpm-macros-0.2.4-1.fc43.noarch
unzip-6.0-66.fc42.aarch64
util-linux-2.40.4-7.fc43.aarch64
util-linux-core-2.40.4-7.fc43.aarch64
which-2.23-1.fc42.aarch64
xxhash-libs-0.8.3-2.fc42.aarch64
xz-5.8.1-1.fc43.aarch64
xz-libs-5.8.1-1.fc43.aarch64
zig-srpm-macros-1-4.fc42.noarch
zip-3.0-43.fc42.aarch64
zlib-ng-compat-2.2.4-2.fc43.aarch64
zstd-1.5.7-1.fc43.aarch64
Start: buildsrpm
Start: rpmbuild -bs
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1746489600
Wrote: /builddir/build/SRPMS/bionetgen-2.9.0-1.fc43.src.rpm
Finish: rpmbuild -bs
INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-rawhide-aarch64-1746538555.779123/root/var/log/dnf5.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-n3mqwz_s/bionetgen/bionetgen.spec) Config(child) 0 minutes 21 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/bionetgen-2.9.0-1.fc43.src.rpm)  Config(fedora-rawhide-aarch64)
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1746538555.779123/root.
INFO: reusing tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1746538555.779123/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start(bootstrap): cleaning package manager metadata
Finish(bootstrap): cleaning package manager metadata
Finish(bootstrap): chroot init
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-1746538555.779123/root.
INFO: calling preinit hooks
INFO: enabled root cache
Start: unpacking root cache
Finish: unpacking root cache
INFO: enabled package manager cache
Start: cleaning package manager metadata
Finish: cleaning package manager metadata
INFO: enabled HW Info plugin
INFO: Buildroot is handled by package management downloaded with a bootstrap image:
  rpm-5.99.90-4.fc43.aarch64
  rpm-sequoia-1.8.0-1.fc43.aarch64
  dnf5-5.2.13.1-1.fc43.aarch64
  dnf5-plugins-5.2.13.1-1.fc43.aarch64
Finish: chroot init
Start: build phase for bionetgen-2.9.0-1.fc43.src.rpm
Start: build setup for bionetgen-2.9.0-1.fc43.src.rpm
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1746489600
Wrote: /builddir/build/SRPMS/bionetgen-2.9.0-1.fc43.src.rpm
Updating and loading repositories:
 fedora                                 100% | 228.4 KiB/s |  15.1 KiB |  00m00s
 Copr repository                        100% |  80.7 KiB/s |   1.5 KiB |  00m00s
Repositories loaded.
Package                 Arch    Version              Repository      Size
Installing:
 cmake                  aarch64 3.31.6-2.fc43        fedora      29.5 MiB
 gcc                    aarch64 15.1.1-1.fc43        fedora      99.0 MiB
 gcc-c++                aarch64 15.1.1-1.fc43        fedora      38.8 MiB
 gcc-gfortran           aarch64 15.1.1-1.fc43        fedora      36.7 MiB
 make                   aarch64 1:4.4.1-10.fc42      fedora       1.8 MiB
 perl-Carp              noarch  1.54-518.fc43        copr_base   41.1 KiB
 perl-Class-Struct      noarch  0.68-518.fc43        copr_base   25.4 KiB
 perl-Data-Dumper       aarch64 2.192-518.fc43       copr_base  120.8 KiB
 perl-Exporter          noarch  5.79-519.fc43        copr_base   54.3 KiB
 perl-File-Basename     noarch  2.86-518.fc43        copr_base   14.0 KiB
 perl-FindBin           noarch  1.54-518.fc43        copr_base    6.8 KiB
 perl-Getopt-Long       noarch  1:2.58-518.fc43      copr_base  101.6 KiB
 perl-IO                aarch64 1.55-518.fc43        copr_base  191.4 KiB
 perl-IPC-Open3         noarch  1.24-518.fc43        copr_base   27.7 KiB
 perl-Math-Complex      noarch  1.63-518.fc43        copr_base   85.1 KiB
 perl-POSIX             aarch64 2.23-518.fc43        copr_base  263.5 KiB
 perl-PathTools         aarch64 3.94-519.fc43        copr_base  224.1 KiB
 perl-Scalar-List-Utils aarch64 5:1.69-518.fc43      copr_base  129.4 KiB
 perl-Symbol            noarch  1.09-518.fc43        copr_base    6.8 KiB
 perl-constant          noarch  1.33-518.fc43        copr_base   19.2 KiB
 perl-generators        noarch  1.16-7.fc42          fedora      21.8 KiB
 perl-interpreter       aarch64 4:5.41.12-518.fc43   copr_base  175.2 KiB
 perl-lib               aarch64 0.65-518.fc43        copr_base    8.5 KiB
 perl-libs              aarch64 4:5.41.12-518.fc43   copr_base   11.6 MiB
 perl-vars              noarch  1.05-518.fc43        copr_base    3.9 KiB
Installing dependencies:
 annobin-docs           noarch  12.93-1.fc43         fedora      98.9 KiB
 annobin-plugin-gcc     aarch64 12.93-1.fc43         fedora       1.0 MiB
 cmake-data             noarch  3.31.6-2.fc43        fedora       8.5 MiB
 cmake-filesystem       aarch64 3.31.6-2.fc43        fedora       0.0   B
 cmake-rpm-macros       noarch  3.31.6-2.fc43        fedora       7.7 KiB
 cpp                    aarch64 15.1.1-1.fc43        fedora      35.4 MiB
 emacs-filesystem       noarch  1:30.0-4.fc42        fedora       0.0   B
 expat                  aarch64 2.7.1-1.fc43         fedora     354.1 KiB
 gcc-plugin-annobin     aarch64 15.1.1-1.fc43        fedora      69.2 KiB
 glibc-devel            aarch64 2.41.9000-12.fc43    fedora       2.2 MiB
 groff-base             aarch64 1.23.0-8.fc42        fedora       4.2 MiB
 jsoncpp                aarch64 1.9.6-1.fc43         fedora     271.8 KiB
 kernel-headers         aarch64 6.15.0-0.rc5.42.fc43 fedora       6.5 MiB
 libasan                aarch64 15.1.1-1.fc43        fedora       1.5 MiB
 libatomic              aarch64 15.1.1-1.fc43        fedora      68.8 KiB
 libb2                  aarch64 0.98.1-13.fc42       fedora      74.1 KiB
 libgfortran            aarch64 15.1.1-1.fc43        fedora       1.6 MiB
 libmpc                 aarch64 1.3.1-7.fc42         fedora     152.7 KiB
 libstdc++-devel        aarch64 15.1.1-1.fc43        fedora      15.7 MiB
 libubsan               aarch64 15.1.1-1.fc43        fedora     475.6 KiB
 libuv                  aarch64 1:1.51.0-1.fc43      fedora     605.4 KiB
 libxcrypt-devel        aarch64 4.4.38-7.fc43        fedora      30.8 KiB
 mpdecimal              aarch64 4.0.0-2.fc43         fedora     280.8 KiB
 ncurses                aarch64 6.5-5.20250125.fc42  fedora     891.9 KiB
 perl-B                 aarch64 1.89-518.fc43        copr_base  545.3 KiB
 perl-DynaLoader        aarch64 1.57-518.fc43        copr_base   32.1 KiB
 perl-Encode            aarch64 4:3.21-518.fc43      copr_base    4.7 MiB
 perl-Errno             aarch64 1.38-518.fc43        copr_base    8.4 KiB
 perl-Fcntl             aarch64 1.20-518.fc43        copr_base   92.8 KiB
 perl-Fedora-VSP        noarch  0.001-36.fc42        fedora      39.7 KiB
 perl-File-Path         noarch  2.18-518.fc43        copr_base   51.5 KiB
 perl-File-Temp         noarch  1:0.231.100-518.fc43 copr_base  127.6 KiB
 perl-File-stat         noarch  1.14-518.fc43        copr_base   12.5 KiB
 perl-Getopt-Std        noarch  1.14-518.fc43        copr_base   11.2 KiB
 perl-HTTP-Tiny         noarch  0.090-518.fc43       copr_base   88.7 KiB
 perl-MIME-Base64       aarch64 3.16-518.fc43        copr_base   80.9 KiB
 perl-Pod-Escapes       noarch  1:1.07-518.fc43      copr_base   20.7 KiB
 perl-Pod-Perldoc       noarch  3.28.01-518.fc43     copr_base  139.8 KiB
 perl-Pod-Simple        noarch  1:3.45-518.fc43      copr_base  522.3 KiB
 perl-Pod-Usage         noarch  4:2.05-518.fc43      copr_base   43.2 KiB
 perl-SelectSaver       noarch  1.02-518.fc43        copr_base    2.2 KiB
 perl-Socket            aarch64 4:2.038-518.fc43     copr_base  113.5 KiB
 perl-Storable          aarch64 1:3.37-519.fc43      copr_base  243.2 KiB
 perl-Term-ANSIColor    noarch  5.01-518.fc43        copr_base   66.8 KiB
 perl-Term-Cap          noarch  1.18-518.fc43        copr_base   23.0 KiB
 perl-Text-ParseWords   noarch  3.31-518.fc43        copr_base   10.7 KiB
 perl-Text-Tabs+Wrap    noarch  2024.001-518.fc43    copr_base   17.4 KiB
 perl-Time-Local        noarch  2:1.350-518.fc43     copr_base   22.0 KiB
 perl-base              noarch  2.27-518.fc43        copr_base   12.6 KiB
 perl-if                noarch  0.61.000-518.fc43    copr_base    5.8 KiB
 perl-locale            noarch  1.13-518.fc43        copr_base    6.1 KiB
 perl-macros            noarch  4:5.41.12-518.fc43   copr_base    5.5 KiB
 perl-mro               aarch64 1.29-518.fc43        copr_base   81.6 KiB
 perl-overload          noarch  1.40-518.fc43        copr_base   71.6 KiB
 perl-overloading       noarch  0.02-518.fc43        copr_base    4.9 KiB
 perl-parent            noarch  1:0.244-518.fc43     copr_base    4.6 KiB
 perl-podlators         noarch  1:6.0.2-518.fc43     copr_base  255.3 KiB
 python-pip-wheel       noarch  25.1.1-1.fc43        fedora       1.2 MiB
 python3                aarch64 3.13.3-2.fc43        fedora      84.7 KiB
 python3-libs           aarch64 3.13.3-2.fc43        fedora      42.0 MiB
 rhash                  aarch64 1.4.5-2.fc42         fedora     394.8 KiB
 tzdata                 noarch  2025b-1.fc43         fedora       1.6 MiB
 vim-filesystem         noarch  2:9.1.1291-1.fc43    fedora      40.0   B

Transaction Summary:
 Installing:        88 packages

Total size of inbound packages is 113 MiB. Need to download 113 MiB.
After this operation, 352 MiB extra will be used (install 352 MiB, remove 0 B).
[ 1/88] cmake-0:3.31.6-2.fc43.aarch64   100% | 126.4 MiB/s |   8.5 MiB |  00m00s
[ 2/88] gcc-c++-0:15.1.1-1.fc43.aarch64 100% | 137.3 MiB/s |  14.0 MiB |  00m00s
[ 3/88] make-1:4.4.1-10.fc42.aarch64    100% |  81.6 MiB/s | 584.6 KiB |  00m00s
[ 4/88] perl-generators-0:1.16-7.fc42.n 100% |   8.0 MiB/s |  16.3 KiB |  00m00s
[ 5/88] perl-Carp-0:1.54-518.fc43.noarc 100% |   2.8 MiB/s |  29.1 KiB |  00m00s
[ 6/88] perl-Class-Struct-0:0.68-518.fc 100% |  11.1 MiB/s |  22.8 KiB |  00m00s
[ 7/88] perl-libs-4:5.41.12-518.fc43.aa 100% | 132.8 MiB/s |   2.4 MiB |  00m00s
[ 8/88] perl-PathTools-0:3.94-519.fc43. 100% |  16.4 MiB/s |  83.9 KiB |  00m00s
[ 9/88] perl-Data-Dumper-0:2.192-518.fc 100% |  24.8 MiB/s |  50.8 KiB |  00m00s
[10/88] perl-Exporter-0:5.79-519.fc43.n 100% |  10.2 MiB/s |  31.4 KiB |  00m00s
[11/88] perl-File-Basename-0:2.86-518.f 100% |  17.5 MiB/s |  17.9 KiB |  00m00s
[12/88] perl-FindBin-0:1.54-518.fc43.no 100% |  14.6 MiB/s |  15.0 KiB |  00m00s
[13/88] perl-Getopt-Long-1:2.58-518.fc4 100% |  25.9 MiB/s |  53.1 KiB |  00m00s
[14/88] perl-IO-0:1.55-518.fc43.aarch64 100% |  25.5 MiB/s |  78.4 KiB |  00m00s
[15/88] perl-IPC-Open3-0:1.24-518.fc43. 100% |  24.0 MiB/s |  24.6 KiB |  00m00s
[16/88] gcc-0:15.1.1-1.fc43.aarch64     100% | 175.5 MiB/s |  36.2 MiB |  00m00s
[17/88] perl-Scalar-List-Utils-5:1.69-5 100% |   1.8 MiB/s |  66.3 KiB |  00m00s
[18/88] perl-Math-Complex-0:1.63-518.fc 100% |  15.2 MiB/s |  46.8 KiB |  00m00s
[19/88] perl-POSIX-0:2.23-518.fc43.aarc 100% |  23.9 MiB/s |  98.0 KiB |  00m00s
[20/88] perl-Symbol-0:1.09-518.fc43.noa 100% |   7.3 MiB/s |  14.9 KiB |  00m00s
[21/88] perl-constant-0:1.33-518.fc43.n 100% |  10.8 MiB/s |  22.1 KiB |  00m00s
[22/88] perl-lib-0:0.65-518.fc43.aarch6 100% |   7.6 MiB/s |  15.6 KiB |  00m00s
[23/88] perl-vars-0:1.05-518.fc43.noarc 100% |   6.7 MiB/s |  13.7 KiB |  00m00s
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--------------------------------------------------------------------------------
[88/88] Total                           100% | 161.5 MiB/s | 112.6 MiB |  00m01s
Running transaction
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Warning: skipped OpenPGP checks for 51 packages from repository: copr_base
Complete!
Finish: build setup for bionetgen-2.9.0-1.fc43.src.rpm
Start: rpmbuild bionetgen-2.9.0-1.fc43.src.rpm
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1746489600
Executing(%mkbuilddir): /bin/sh -e /var/tmp/rpm-tmp.HPBKfL
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.iXsa8X
+ umask 022
+ cd /builddir/build/BUILD/bionetgen-2.9.0-build
+ cd /builddir/build/BUILD/bionetgen-2.9.0-build
+ rm -rf bionetgen-2.9.0
+ /usr/bin/mkdir -p bionetgen-2.9.0
+ cd bionetgen-2.9.0
+ /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/bionetgen-BioNetGen-2.9.0.tar.gz
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ pushd bionetgen-BioNetGen-2.9.0
~/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0 ~/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0
+ rm -f bng2/libsource/gsl-1.9.tar.gz bng2/libsource/Mathutils.tar.gz bng2/libsource/muparser_v2_2_4.zip
+ tar -xvf bng2/libsource/cvode-2.6.0.tar.gz -C bng2/Network3
cvode-2.6.0/README
cvode-2.6.0/INSTALL_NOTES
cvode-2.6.0/LICENSE
cvode-2.6.0/Makefile.in
cvode-2.6.0/configure.ac
cvode-2.6.0/acinclude.m4
cvode-2.6.0/config.hin
cvode-2.6.0/configure
cvode-2.6.0/CMakeLists.txt
cvode-2.6.0/config/config.guess
cvode-2.6.0/config/config.sub
cvode-2.6.0/config/install-sh
cvode-2.6.0/config/mkinstalldirs
cvode-2.6.0/config/rminstalldirs
cvode-2.6.0/config/ltmain.sh
cvode-2.6.0/config/mod_c.m4
cvode-2.6.0/config/mod_fortran.m4
cvode-2.6.0/config/cust_general.m4
cvode-2.6.0/config/CheckFortranFunctionExists.cmake
cvode-2.6.0/config/SundialsFortran.cmake
cvode-2.6.0/config/SundialsLapack.cmake
cvode-2.6.0/config/SundialsMPIC.cmake
cvode-2.6.0/config/SundialsMPIF.cmake
cvode-2.6.0/config/FindLAPACK.cmake
cvode-2.6.0/config/FindBLAS.cmake
cvode-2.6.0/config/FindMPI.cmake
cvode-2.6.0/bin/sundials-config.in
cvode-2.6.0/bin/fortran-update.in
cvode-2.6.0/bin/makefile-update.in
cvode-2.6.0/include/sundials/sundials_config.in
cvode-2.6.0/include/sundials/sundials_types.h
cvode-2.6.0/include/sundials/sundials_math.h
cvode-2.6.0/include/sundials/sundials_nvector.h
cvode-2.6.0/include/sundials/sundials_fnvector.h
cvode-2.6.0/include/sundials/sundials_dense.h
cvode-2.6.0/include/sundials/sundials_direct.h
cvode-2.6.0/include/sundials/sundials_band.h
cvode-2.6.0/include/sundials/sundials_lapack.h
cvode-2.6.0/include/sundials/sundials_spgmr.h
cvode-2.6.0/include/sundials/sundials_spbcgs.h
cvode-2.6.0/include/sundials/sundials_sptfqmr.h
cvode-2.6.0/include/sundials/sundials_iterative.h
cvode-2.6.0/include/nvector/nvector_serial.h
cvode-2.6.0/include/nvector/nvector_parallel.h
cvode-2.6.0/src/sundials/README
cvode-2.6.0/src/sundials/Makefile.in
cvode-2.6.0/src/sundials/CMakeLists.txt
cvode-2.6.0/src/sundials/sundials_math.c
cvode-2.6.0/src/sundials/sundials_nvector.c
cvode-2.6.0/src/sundials/sundials_dense.c
cvode-2.6.0/src/sundials/sundials_direct.c
cvode-2.6.0/src/sundials/sundials_band.c
cvode-2.6.0/src/sundials/sundials_spgmr.c
cvode-2.6.0/src/sundials/sundials_spbcgs.c
cvode-2.6.0/src/sundials/sundials_sptfqmr.c
cvode-2.6.0/src/sundials/sundials_iterative.c
cvode-2.6.0/src/nvec_ser/README
cvode-2.6.0/src/nvec_ser/Makefile.in
cvode-2.6.0/src/nvec_ser/CMakeLists.txt
cvode-2.6.0/src/nvec_ser/fnvector_serial.h
cvode-2.6.0/src/nvec_ser/nvector_serial.c
cvode-2.6.0/src/nvec_ser/fnvector_serial.c
cvode-2.6.0/src/nvec_par/README
cvode-2.6.0/src/nvec_par/Makefile.in
cvode-2.6.0/src/nvec_par/CMakeLists.txt
cvode-2.6.0/src/nvec_par/fnvector_parallel.h
cvode-2.6.0/src/nvec_par/nvector_parallel.c
cvode-2.6.0/src/nvec_par/fnvector_parallel.c
cvode-2.6.0/examples/templates/cmakelists_parallel_C_ex.in
cvode-2.6.0/examples/templates/cmakelists_parallel_F77_ex.in
cvode-2.6.0/examples/templates/cmakelists_serial_C_ex.in
cvode-2.6.0/examples/templates/cmakelists_serial_F77_ex.in
cvode-2.6.0/examples/templates/makefile_parallel_C_ex.in
cvode-2.6.0/examples/templates/makefile_parallel_F77_ex.in
cvode-2.6.0/examples/templates/makefile_serial_C_ex.in
cvode-2.6.0/examples/templates/makefile_serial_F77_ex.in
cvode-2.6.0/doc/cvode/cv_guide.pdf
cvode-2.6.0/doc/cvode/cv_examples.pdf
cvode-2.6.0/include/cvode/cvode.h
cvode-2.6.0/include/cvode/cvode_direct.h
cvode-2.6.0/include/cvode/cvode_dense.h
cvode-2.6.0/include/cvode/cvode_band.h
cvode-2.6.0/include/cvode/cvode_lapack.h
cvode-2.6.0/include/cvode/cvode_diag.h
cvode-2.6.0/include/cvode/cvode_spgmr.h
cvode-2.6.0/include/cvode/cvode_spbcgs.h
cvode-2.6.0/include/cvode/cvode_sptfqmr.h
cvode-2.6.0/include/cvode/cvode_spils.h
cvode-2.6.0/include/cvode/cvode_bandpre.h
cvode-2.6.0/include/cvode/cvode_bbdpre.h
cvode-2.6.0/src/cvode/LICENSE
cvode-2.6.0/src/cvode/README
cvode-2.6.0/src/cvode/Makefile.in
cvode-2.6.0/src/cvode/CMakeLists.txt
cvode-2.6.0/src/cvode/cvode.c
cvode-2.6.0/src/cvode/cvode_io.c
cvode-2.6.0/src/cvode/cvode_direct.c
cvode-2.6.0/src/cvode/cvode_dense.c
cvode-2.6.0/src/cvode/cvode_band.c
cvode-2.6.0/src/cvode/cvode_lapack.c
cvode-2.6.0/src/cvode/cvode_diag.c
cvode-2.6.0/src/cvode/cvode_spils.c
cvode-2.6.0/src/cvode/cvode_spgmr.c
cvode-2.6.0/src/cvode/cvode_spbcgs.c
cvode-2.6.0/src/cvode/cvode_sptfqmr.c
cvode-2.6.0/src/cvode/cvode_bandpre.c
cvode-2.6.0/src/cvode/cvode_bbdpre.c
cvode-2.6.0/src/cvode/cvode_impl.h
cvode-2.6.0/src/cvode/cvode_direct_impl.h
cvode-2.6.0/src/cvode/cvode_diag_impl.h
cvode-2.6.0/src/cvode/cvode_spils_impl.h
cvode-2.6.0/src/cvode/cvode_bandpre_impl.h
cvode-2.6.0/src/cvode/cvode_bbdpre_impl.h
cvode-2.6.0/src/cvode/fcmix/Makefile.in
cvode-2.6.0/src/cvode/fcmix/CMakeLists.txt
cvode-2.6.0/src/cvode/fcmix/fcvode.c
cvode-2.6.0/src/cvode/fcmix/fcvewt.c
cvode-2.6.0/src/cvode/fcmix/fcvpreco.c
cvode-2.6.0/src/cvode/fcmix/fcvjtimes.c
cvode-2.6.0/src/cvode/fcmix/fcvband.c
cvode-2.6.0/src/cvode/fcmix/fcvdense.c
cvode-2.6.0/src/cvode/fcmix/fcvlapack.c
cvode-2.6.0/src/cvode/fcmix/fcvlapband.c
cvode-2.6.0/src/cvode/fcmix/fcvlapdense.c
cvode-2.6.0/src/cvode/fcmix/fcvbp.c
cvode-2.6.0/src/cvode/fcmix/fcvbbd.c
cvode-2.6.0/src/cvode/fcmix/fcvroot.c
cvode-2.6.0/src/cvode/fcmix/fcvode.h
cvode-2.6.0/src/cvode/fcmix/fcvbp.h
cvode-2.6.0/src/cvode/fcmix/fcvbbd.h
cvode-2.6.0/src/cvode/fcmix/fcvroot.h
cvode-2.6.0/examples/cvode/serial/README
cvode-2.6.0/examples/cvode/serial/Makefile.in
cvode-2.6.0/examples/cvode/serial/CMakeLists.txt
cvode-2.6.0/examples/cvode/serial/cvAdvDiff_bnd.c
cvode-2.6.0/examples/cvode/serial/cvAdvDiff_bndL.c
cvode-2.6.0/examples/cvode/serial/cvAdvDiff_bndL.out
cvode-2.6.0/examples/cvode/serial/cvAdvDiff_bnd.out
cvode-2.6.0/examples/cvode/serial/cvDirectDemo_ls.c
cvode-2.6.0/examples/cvode/serial/cvDirectDemo_ls.out
cvode-2.6.0/examples/cvode/serial/cvDiurnal_kry_bp.c
cvode-2.6.0/examples/cvode/serial/cvDiurnal_kry_bp.out
cvode-2.6.0/examples/cvode/serial/cvDiurnal_kry.c
cvode-2.6.0/examples/cvode/serial/cvDiurnal_kry.out
cvode-2.6.0/examples/cvode/serial/cvKrylovDemo_ls.c
cvode-2.6.0/examples/cvode/serial/cvKrylovDemo_ls.out
cvode-2.6.0/examples/cvode/serial/cvKrylovDemo_prec.c
cvode-2.6.0/examples/cvode/serial/cvKrylovDemo_prec.out
cvode-2.6.0/examples/cvode/serial/cvRoberts_dns.c
cvode-2.6.0/examples/cvode/serial/cvRoberts_dnsL.c
cvode-2.6.0/examples/cvode/serial/cvRoberts_dnsL.out
cvode-2.6.0/examples/cvode/serial/cvRoberts_dns.out
cvode-2.6.0/examples/cvode/serial/cvRoberts_dns_uw.c
cvode-2.6.0/examples/cvode/serial/cvRoberts_dns_uw.out
cvode-2.6.0/examples/cvode/fcmix_serial/README
cvode-2.6.0/examples/cvode/fcmix_serial/Makefile.in
cvode-2.6.0/examples/cvode/fcmix_serial/CMakeLists.txt
cvode-2.6.0/examples/cvode/fcmix_serial/fcvAdvDiff_bnd.f
cvode-2.6.0/examples/cvode/fcmix_serial/fcvAdvDiff_bnd.out
cvode-2.6.0/examples/cvode/fcmix_serial/fcvDiurnal_kry_bp.f
cvode-2.6.0/examples/cvode/fcmix_serial/fcvDiurnal_kry_bp.out
cvode-2.6.0/examples/cvode/fcmix_serial/fcvDiurnal_kry.f
cvode-2.6.0/examples/cvode/fcmix_serial/fcvDiurnal_kry.out
cvode-2.6.0/examples/cvode/fcmix_serial/fcvRoberts_dns.f
cvode-2.6.0/examples/cvode/fcmix_serial/fcvRoberts_dnsL.f
cvode-2.6.0/examples/cvode/fcmix_serial/fcvRoberts_dnsL.out
cvode-2.6.0/examples/cvode/fcmix_serial/fcvRoberts_dns.out
cvode-2.6.0/examples/cvode/parallel/README
cvode-2.6.0/examples/cvode/parallel/Makefile.in
cvode-2.6.0/examples/cvode/parallel/CMakeLists.txt
cvode-2.6.0/examples/cvode/parallel/cvAdvDiff_non_p.c
cvode-2.6.0/examples/cvode/parallel/cvAdvDiff_non_p.out
cvode-2.6.0/examples/cvode/parallel/cvDiurnal_kry_bbd_p.c
cvode-2.6.0/examples/cvode/parallel/cvDiurnal_kry_bbd_p.out
cvode-2.6.0/examples/cvode/parallel/cvDiurnal_kry_p.c
cvode-2.6.0/examples/cvode/parallel/cvDiurnal_kry_p.out
cvode-2.6.0/examples/cvode/fcmix_parallel/README
cvode-2.6.0/examples/cvode/fcmix_parallel/Makefile.in
cvode-2.6.0/examples/cvode/fcmix_parallel/CMakeLists.txt
cvode-2.6.0/examples/cvode/fcmix_parallel/fcvDiag_non_p.f
cvode-2.6.0/examples/cvode/fcmix_parallel/fcvDiag_non_p.out
cvode-2.6.0/examples/cvode/fcmix_parallel/fcvDiag_kry_bbd_p.f
cvode-2.6.0/examples/cvode/fcmix_parallel/fcvDiag_kry_bbd_p.out
cvode-2.6.0/examples/cvode/fcmix_parallel/fcvDiag_kry_p.f
cvode-2.6.0/examples/cvode/fcmix_parallel/fcvDiag_kry_p.out
+ tar -xvf bng2/libsource/muparser_v2_2_4.tar.gz -C bng2/Network3
muparser_v2_2_4/._Changes.txt
muparser_v2_2_4/Changes.txt
muparser_v2_2_4/._Install.txt
muparser_v2_2_4/Install.txt
muparser_v2_2_4/._License.txt
muparser_v2_2_4/License.txt
muparser_v2_2_4/._Makefile.in
muparser_v2_2_4/Makefile.in
muparser_v2_2_4/._build
muparser_v2_2_4/build/
muparser_v2_2_4/build/._autoconf
muparser_v2_2_4/build/autoconf/
muparser_v2_2_4/build/._bakefiles
muparser_v2_2_4/build/bakefiles/
muparser_v2_2_4/build/._makefile.mingw
muparser_v2_2_4/build/makefile.mingw
muparser_v2_2_4/build/._makefile.vc
muparser_v2_2_4/build/makefile.vc
muparser_v2_2_4/build/._msvc2013
muparser_v2_2_4/build/msvc2013/
muparser_v2_2_4/build/._obj
muparser_v2_2_4/build/obj/
muparser_v2_2_4/build/msvc2013/._muparser.sln
muparser_v2_2_4/build/msvc2013/muparser.sln
muparser_v2_2_4/build/msvc2013/._muparser_example1.vcxproj
muparser_v2_2_4/build/msvc2013/muparser_example1.vcxproj
muparser_v2_2_4/build/msvc2013/._muparser_example1.vcxproj.filters
muparser_v2_2_4/build/msvc2013/muparser_example1.vcxproj.filters
muparser_v2_2_4/build/msvc2013/._muparser_example2.vcxproj
muparser_v2_2_4/build/msvc2013/muparser_example2.vcxproj
muparser_v2_2_4/build/msvc2013/._muparser_example2.vcxproj.filters
muparser_v2_2_4/build/msvc2013/muparser_example2.vcxproj.filters
muparser_v2_2_4/build/msvc2013/._muparser_muParser.vcxproj
muparser_v2_2_4/build/msvc2013/muparser_muParser.vcxproj
muparser_v2_2_4/build/msvc2013/._muparser_muParser.vcxproj.filters
muparser_v2_2_4/build/msvc2013/muparser_muParser.vcxproj.filters
muparser_v2_2_4/build/bakefiles/._Bakefiles.bkgen
muparser_v2_2_4/build/bakefiles/Bakefiles.bkgen
muparser_v2_2_4/build/bakefiles/._howto.txt
muparser_v2_2_4/build/bakefiles/howto.txt
muparser_v2_2_4/build/bakefiles/._muparser.bkl
muparser_v2_2_4/build/bakefiles/muparser.bkl
muparser_v2_2_4/build/bakefiles/._presets
muparser_v2_2_4/build/bakefiles/presets/
muparser_v2_2_4/build/bakefiles/presets/._debugopt.bkl
muparser_v2_2_4/build/bakefiles/presets/debugopt.bkl
muparser_v2_2_4/build/bakefiles/presets/._setbuilddir.bkl
muparser_v2_2_4/build/bakefiles/presets/setbuilddir.bkl
muparser_v2_2_4/build/bakefiles/presets/._sharedopt.bkl
muparser_v2_2_4/build/bakefiles/presets/sharedopt.bkl
muparser_v2_2_4/build/bakefiles/presets/._unicodeopt.bkl
muparser_v2_2_4/build/bakefiles/presets/unicodeopt.bkl
muparser_v2_2_4/build/autoconf/._aclocal.m4
muparser_v2_2_4/build/autoconf/aclocal.m4
muparser_v2_2_4/build/autoconf/._acregen.sh
muparser_v2_2_4/build/autoconf/acregen.sh
muparser_v2_2_4/build/autoconf/._autoconf_inc.m4
muparser_v2_2_4/build/autoconf/autoconf_inc.m4
muparser_v2_2_4/build/autoconf/._bakefile-presets.m4
muparser_v2_2_4/build/autoconf/bakefile-presets.m4
muparser_v2_2_4/build/autoconf/._config.guess
muparser_v2_2_4/build/autoconf/config.guess
muparser_v2_2_4/build/autoconf/._config.sub
muparser_v2_2_4/build/autoconf/config.sub
muparser_v2_2_4/build/autoconf/._configure.ac
muparser_v2_2_4/build/autoconf/configure.ac
muparser_v2_2_4/build/autoconf/._install-sh
muparser_v2_2_4/build/autoconf/install-sh
muparser_v2_2_4/build/autoconf/._muparser.pc.in
muparser_v2_2_4/build/autoconf/muparser.pc.in
muparser_v2_2_4/._configure
muparser_v2_2_4/configure
muparser_v2_2_4/._docs
muparser_v2_2_4/docs/
muparser_v2_2_4/docs/._Doxyfile
muparser_v2_2_4/docs/Doxyfile
muparser_v2_2_4/docs/._muparser_doc.html
muparser_v2_2_4/docs/muparser_doc.html
muparser_v2_2_4/._include
muparser_v2_2_4/include/
muparser_v2_2_4/include/._muParser.h
muparser_v2_2_4/include/muParser.h
muparser_v2_2_4/include/._muParserBase.h
muparser_v2_2_4/include/muParserBase.h
muparser_v2_2_4/include/._muParserBytecode.h
muparser_v2_2_4/include/muParserBytecode.h
muparser_v2_2_4/include/._muParserCallback.h
muparser_v2_2_4/include/muParserCallback.h
muparser_v2_2_4/include/._muParserDef.h
muparser_v2_2_4/include/muParserDef.h
muparser_v2_2_4/include/._muParserDLL.h
muparser_v2_2_4/include/muParserDLL.h
muparser_v2_2_4/include/._muParserError.h
muparser_v2_2_4/include/muParserError.h
muparser_v2_2_4/include/._muParserFixes.h
muparser_v2_2_4/include/muParserFixes.h
muparser_v2_2_4/include/._muParserInt.h
muparser_v2_2_4/include/muParserInt.h
muparser_v2_2_4/include/._muParserStack.h
muparser_v2_2_4/include/muParserStack.h
muparser_v2_2_4/include/._muParserTemplateMagic.h
muparser_v2_2_4/include/muParserTemplateMagic.h
muparser_v2_2_4/include/._muParserTest.h
muparser_v2_2_4/include/muParserTest.h
muparser_v2_2_4/include/._muParserToken.h
muparser_v2_2_4/include/muParserToken.h
muparser_v2_2_4/include/._muParserTokenReader.h
muparser_v2_2_4/include/muParserTokenReader.h
muparser_v2_2_4/._lib
muparser_v2_2_4/lib/
muparser_v2_2_4/lib/._Readme.txt
muparser_v2_2_4/lib/Readme.txt
muparser_v2_2_4/._samples
muparser_v2_2_4/samples/
muparser_v2_2_4/samples/._example1
muparser_v2_2_4/samples/example1/
muparser_v2_2_4/samples/._example2
muparser_v2_2_4/samples/example2/
muparser_v2_2_4/samples/example2/._example2.c
muparser_v2_2_4/samples/example2/example2.c
muparser_v2_2_4/samples/example2/._muparser32.dll
muparser_v2_2_4/samples/example2/muparser32.dll
muparser_v2_2_4/samples/example2/._muparser32.lib
muparser_v2_2_4/samples/example2/muparser32.lib
muparser_v2_2_4/samples/example2/._muparser64.dll
muparser_v2_2_4/samples/example2/muparser64.dll
muparser_v2_2_4/samples/example2/._muparser64.lib
muparser_v2_2_4/samples/example2/muparser64.lib
muparser_v2_2_4/samples/example2/._muparserd32.dll
muparser_v2_2_4/samples/example2/muparserd32.dll
muparser_v2_2_4/samples/example2/._muparserd32.lib
muparser_v2_2_4/samples/example2/muparserd32.lib
muparser_v2_2_4/samples/example2/._muparserd64.dll
muparser_v2_2_4/samples/example2/muparserd64.dll
muparser_v2_2_4/samples/example2/._muparserd64.lib
muparser_v2_2_4/samples/example2/muparserd64.lib
muparser_v2_2_4/samples/example2/._Readme.txt
muparser_v2_2_4/samples/example2/Readme.txt
muparser_v2_2_4/samples/example1/._example1.cpp
muparser_v2_2_4/samples/example1/example1.cpp
muparser_v2_2_4/._src
muparser_v2_2_4/src/
muparser_v2_2_4/src/._muParser.cpp
muparser_v2_2_4/src/muParser.cpp
muparser_v2_2_4/src/._muParserBase.cpp
muparser_v2_2_4/src/muParserBase.cpp
muparser_v2_2_4/src/._muParserBytecode.cpp
muparser_v2_2_4/src/muParserBytecode.cpp
muparser_v2_2_4/src/._muParserCallback.cpp
muparser_v2_2_4/src/muParserCallback.cpp
muparser_v2_2_4/src/._muParserDLL.cpp
muparser_v2_2_4/src/muParserDLL.cpp
muparser_v2_2_4/src/._muParserError.cpp
muparser_v2_2_4/src/muParserError.cpp
muparser_v2_2_4/src/._muParserInt.cpp
muparser_v2_2_4/src/muParserInt.cpp
muparser_v2_2_4/src/._muParserTest.cpp
muparser_v2_2_4/src/muParserTest.cpp
muparser_v2_2_4/src/._muParserTokenReader.cpp
muparser_v2_2_4/src/muParserTokenReader.cpp
Patch #0 (bionetgen-fix_linker.patch):
+ echo 'Patch #0 (bionetgen-fix_linker.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .backup --fuzz=0
patching file bng2/Network3/CMakeLists.txt
Patch #1 (bionetgen-fix_cmake_minimum.patch):
+ echo 'Patch #1 (bionetgen-fix_cmake_minimum.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .backup --fuzz=0
patching file bng2/Network3/CMakeLists.txt
patching file bng2/Network3/cvode-2.6.0/CMakeLists.txt
Patch #2 (bionetgen-cmake-c99.patch):
+ echo 'Patch #2 (bionetgen-cmake-c99.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .c99 --fuzz=0
patching file bng2/Network3/cvode-2.6.0/config/SundialsFortran.cmake
+ rm -f bng2/libsource/cvode-2.6.0.tar.gz bng2/libsource/muparser_v2_2_4.tar.gz
+ popd
~/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.3oWXIn
+ umask 022
+ cd /builddir/build/BUILD/bionetgen-2.9.0-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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
~/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 ~/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -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 bionetgen-2.9.0
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17'
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations'
+ pushd bionetgen-BioNetGen-2.9.0/bng2/Network3
+ cd muparser_v2_2_4
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17'
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations'
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -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
+ '[' '-flto=auto -ffat-lto-objectsx' '!=' x ']'
++ find . -type f -name configure -print
+ for file in $(find . -type f -name configure -print)
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup '/lt_cv_sys_global_symbol_to_cdecl=/s#(".*"|'\''.*'\'')#"sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ '[' 1 = 1 ']'
+++ dirname ./configure
++ find . -name config.guess -o -name config.sub
+ for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub)
++ basename ./build/autoconf/config.guess
+ '[' -f /usr/lib/rpm/redhat/config.guess ']'
+ /usr/bin/rm -f ./build/autoconf/config.guess
++ basename ./build/autoconf/config.guess
+ /usr/bin/cp -fv /usr/lib/rpm/redhat/config.guess ./build/autoconf/config.guess
'/usr/lib/rpm/redhat/config.guess' -> './build/autoconf/config.guess'
+ for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub)
++ basename ./build/autoconf/config.sub
+ '[' -f /usr/lib/rpm/redhat/config.sub ']'
+ /usr/bin/rm -f ./build/autoconf/config.sub
++ basename ./build/autoconf/config.sub
+ /usr/bin/cp -fv /usr/lib/rpm/redhat/config.sub ./build/autoconf/config.sub
'/usr/lib/rpm/redhat/config.sub' -> './build/autoconf/config.sub'
+ '[' 1 = 1 ']'
+ '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors' ']'
++ find . -name ltmain.sh
++ grep -q runstatedir=DIR ./configure
+ ./configure --build=aarch64-redhat-linux --host=aarch64-redhat-linux --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/bin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info --enable-shared=no --enable-static=yes --enable-samples=no
configure: WARNING: unrecognized options: --enable-static
checking build system type... aarch64-redhat-linux-gnu
checking host system type... aarch64-redhat-linux-gnu
checking target system type... aarch64-redhat-linux-gnu
checking for gawk... gawk
checking for a BSD-compatible install... /usr/bin/install -c
checking whether ln -s works... yes
checking for aarch64-redhat-linux-ranlib... no
checking for ranlib... ranlib
checking for aarch64-redhat-linux-gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking how to run the C++ preprocessor... g++ -E
checking for the --enable-debug option... no
checking for the --enable-shared option... no
checking for the --enable-samples option... no
checking whether we are using the Intel C compiler... no
checking whether we are using the Intel C++ compiler... no
checking whether we are using the Sun C++ compiler... no
checking for aarch64-redhat-linux-ranlib... ranlib
checking whether ln -s works... yes
checking whether make sets $(MAKE)... yes
checking for aarch64-redhat-linux-ar... no
checking for ar... ar
checking for aarch64-redhat-linux-strip... no
checking for strip... strip
checking for aarch64-redhat-linux-nm... no
checking for nm... nm
checking for command to install directories... /usr/bin/install -c -d
checking if make is GNU make... egrep: warning: egrep is obsolescent; using grep -E
yes
checking for dependency tracking method... disabled
configure: creating ./config.status
config.status: creating Makefile
config.status: creating build/autoconf/muparser.pc

 ----------------------------------------------------------------
  Configuration for muparser 2.2.4 successfully completed.
  Summary of main configuration settings for muparser:
  - STATIC mode
configure: WARNING: unrecognized options: --enable-static
  - RELEASE build
  - SAMPLES disabled
  Now, just run make.
 ----------------------------------------------------------------

+ /usr/bin/make -O -j4 V=1 VERBOSE=1
g++ -c -o muParser_lib_muParserCallback.o -DNDEBUG   -I./include  -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations ./src/muParserCallback.cpp
g++ -c -o muParser_lib_muParserDLL.o -DNDEBUG   -I./include  -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations ./src/muParserDLL.cpp
g++ -c -o muParser_lib_muParser.o -DNDEBUG   -I./include  -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations ./src/muParser.cpp
g++ -c -o muParser_lib_muParserBytecode.o -DNDEBUG   -I./include  -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations ./src/muParserBytecode.cpp
./src/muParserBytecode.cpp: In member function ‘void mu::ParserByteCode::AddOp(mu::ECmdCode)’:
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmLE’ not handled in switch [-Wswitch]
  213 |         switch(a_Oprt)
      |               ^
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmGE’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmNEQ’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmEQ’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmLT’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmGT’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmLAND’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmLOR’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmASSIGN’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmBO’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmBC’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmIF’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmELSE’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmENDIF’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmARG_SEP’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmVAR’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmVAL’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmVARPOW2’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmVARPOW3’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmVARPOW4’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmVARMUL’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmPOW2’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmFUNC’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmFUNC_STR’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmFUNC_BULK’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmSTRING’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmOPRT_BIN’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmOPRT_POSTFIX’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmOPRT_INFIX’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmEND’ not handled in switch [-Wswitch]
./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmUNKNOWN’ not handled in switch [-Wswitch]
g++ -c -o muParser_lib_muParserError.o -DNDEBUG   -I./include  -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations ./src/muParserError.cpp
g++ -c -o muParser_lib_muParserInt.o -DNDEBUG   -I./include  -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations ./src/muParserInt.cpp
g++ -c -o muParser_lib_muParserTokenReader.o -DNDEBUG   -I./include  -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations ./src/muParserTokenReader.cpp
g++ -c -o muParser_lib_muParserBase.o -DNDEBUG   -I./include  -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations ./src/muParserBase.cpp
./src/muParserBase.cpp: In member function ‘void mu::ParserBase::ApplyFunc(mu::ParserStack<mu::ParserToken<double, std::__cxx11::basic_string<char> > >&, mu::ParserStack<mu::ParserToken<double, std::__cxx11::basic_string<char> > >&, int) const’:
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmLE’ not handled in switch [-Wswitch]
  838 |     switch(funTok.GetCode())
      |           ^
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmGE’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmNEQ’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmEQ’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmLT’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmGT’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmADD’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmSUB’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmMUL’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmDIV’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmPOW’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmLAND’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmLOR’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmASSIGN’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmBO’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmBC’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmIF’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmELSE’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmENDIF’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmARG_SEP’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmVAR’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmVAL’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmVARPOW2’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmVARPOW3’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmVARPOW4’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmVARMUL’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmPOW2’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmSTRING’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmEND’ not handled in switch [-Wswitch]
./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmUNKNOWN’ not handled in switch [-Wswitch]
g++ -c -o muParser_lib_muParserTest.o -DNDEBUG   -I./include  -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations ./src/muParserTest.cpp
./src/muParserTest.cpp:1387: warning: ignoring ‘#pragma warning ’ [-Wunknown-pragmas]
 1387 |           #pragma warning(push)
./src/muParserTest.cpp:1388: warning: ignoring ‘#pragma warning ’ [-Wunknown-pragmas]
 1388 |           #pragma warning(disable:4127)
./src/muParserTest.cpp:1390: warning: ignoring ‘#pragma warning ’ [-Wunknown-pragmas]
 1390 |           #pragma warning(pop)
rm -f lib/libmuparser.a
ar rcu lib/libmuparser.a muParser_lib_muParser.o muParser_lib_muParserBase.o muParser_lib_muParserBytecode.o muParser_lib_muParserCallback.o muParser_lib_muParserDLL.o muParser_lib_muParserError.o muParser_lib_muParserInt.o muParser_lib_muParserTest.o muParser_lib_muParserTokenReader.o
ranlib lib/libmuparser.a
+ cd ../
+ make -j1 -C src/util/mathutils
make: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/mathutils'
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o allocate.o allocate.c
ar -rv libmathutils.a allocate.o
ar: creating libmathutils.a
a - allocate.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o cabs.o cabs.c
ar -rv libmathutils.a cabs.o
a - cabs.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o cadd.o cadd.c
ar -rv libmathutils.a cadd.o
a - cadd.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o cconj.o cconj.c
ar -rv libmathutils.a cconj.o
a - cconj.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o cmult.o cmult.c
ar -rv libmathutils.a cmult.o
a - cmult.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o complex_zero.o complex_zero.c
ar -rv libmathutils.a complex_zero.o
a - complex_zero.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o copy_vector.o copy_vector.c
ar -rv libmathutils.a copy_vector.o
a - copy_vector.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o cprob.o cprob.c
ar -rv libmathutils.a cprob.o
a - cprob.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o csub.o csub.c
ar -rv libmathutils.a csub.o
a - csub.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o dotp.o dotp.c
ar -rv libmathutils.a dotp.o
a - dotp.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o eigensystem.o eigensystem.c
ar -rv libmathutils.a eigensystem.o
a - eigensystem.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o expi.o expi.c
ar -rv libmathutils.a expi.o
a - expi.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o gram_schmidt.o gram_schmidt.c
ar -rv libmathutils.a gram_schmidt.o
a - gram_schmidt.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o herm_matrix_mult.o herm_matrix_mult.c
ar -rv libmathutils.a herm_matrix_mult.o
a - herm_matrix_mult.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o herm_matrix_vector_mult.o herm_matrix_vector_mult.c
ar -rv libmathutils.a herm_matrix_vector_mult.o
a - herm_matrix_vector_mult.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o icmult.o icmult.c
ar -rv libmathutils.a icmult.o
a - icmult.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o init.o init.c
ar -rv libmathutils.a init.o
a - init.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o integration.o integration.c
ar -rv libmathutils.a integration.o
a - integration.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o linsolve.o linsolve.c
ar -rv libmathutils.a linsolve.o
a - linsolve.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o matherr.o matherr.c
ar -rv libmathutils.a matherr.o
a - matherr.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o matrix_add.o matrix_add.c
ar -rv libmathutils.a matrix_add.o
a - matrix_add.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o matrix_elt.o matrix_elt.c
ar -rv libmathutils.a matrix_elt.o
a - matrix_elt.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o matrix_mult.o matrix_mult.c
ar -rv libmathutils.a matrix_mult.o
a - matrix_mult.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o matrix_sub.o matrix_sub.c
ar -rv libmathutils.a matrix_sub.o
a - matrix_sub.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o matrix_transpose.o matrix_transpose.c
ar -rv libmathutils.a matrix_transpose.o
a - matrix_transpose.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o matrix_vector_mult.o matrix_vector_mult.c
ar -rv libmathutils.a matrix_vector_mult.o
a - matrix_vector_mult.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o matrixexp.o matrixexp.c
ar -rv libmathutils.a matrixexp.o
a - matrixexp.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o minimum.o minimum.c
ar -rv libmathutils.a minimum.o
a - minimum.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o norm.o norm.c
ar -rv libmathutils.a norm.o
a - norm.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o normsq.o normsq.c
ar -rv libmathutils.a normsq.o
a - normsq.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o project.o project.c
ar -rv libmathutils.a project.o
a - project.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o random.o random.c
ar -rv libmathutils.a random.o
a - random.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o rcmult.o rcmult.c
ar -rv libmathutils.a rcmult.o
a - rcmult.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o rect_transpose.o rect_transpose.c
ar -rv libmathutils.a rect_transpose.o
a - rect_transpose.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o roots.o roots.c
roots.c: In function ‘ROOT_FIND’:
roots.c:55:13: warning: ‘e’ may be used uninitialized [-Wmaybe-uninitialized]
   55 |         if (fabs(e) >= tol1 && fabs(fa) > fabs(fb)) {
      |             ^~~~~~~
roots.c:32:29: note: ‘e’ was declared here
   32 |     double a=x1,b=x2,c=x2,d,e,min1,min2;
      |                             ^
ar -rv libmathutils.a roots.o
a - roots.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o runge-kutta.o runge-kutta.c
ar -rv libmathutils.a runge-kutta.o
a - runge-kutta.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o scale_vector.o scale_vector.c
ar -rv libmathutils.a scale_vector.o
a - scale_vector.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o splines.o splines.c
ar -rv libmathutils.a splines.o
a - splines.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o sum_vector.o sum_vector.c
ar -rv libmathutils.a sum_vector.o
a - sum_vector.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o svd.o svd.c
ar -rv libmathutils.a svd.o
a - svd.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o sym_linsolve.o sym_linsolve.c
ar -rv libmathutils.a sym_linsolve.o
a - sym_linsolve.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o sym_matrix_mult.o sym_matrix_mult.c
ar -rv libmathutils.a sym_matrix_mult.o
a - sym_matrix_mult.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o sym_matrix_vector_mult.o sym_matrix_vector_mult.c
ar -rv libmathutils.a sym_matrix_vector_mult.o
a - sym_matrix_vector_mult.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o sympos_linsolve.o sympos_linsolve.c
ar -rv libmathutils.a sympos_linsolve.o
a - sympos_linsolve.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o vector_add.o vector_add.c
ar -rv libmathutils.a vector_add.o
a - vector_add.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o vector_dist.o vector_dist.c
ar -rv libmathutils.a vector_dist.o
a - vector_dist.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o zcopy_vector.o zcopy_vector.c
ar -rv libmathutils.a zcopy_vector.o
a - zcopy_vector.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o zdotc.o zdotc.c
ar -rv libmathutils.a zdotc.o
a - zdotc.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o zdotu.o zdotu.c
ar -rv libmathutils.a zdotu.o
a - zdotu.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o zmatrix_mult.o zmatrix_mult.c
ar -rv libmathutils.a zmatrix_mult.o
a - zmatrix_mult.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o zmatrix_transpose.o zmatrix_transpose.c
ar -rv libmathutils.a zmatrix_transpose.o
a - zmatrix_transpose.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o zmatrix_vector_mult.o zmatrix_vector_mult.c
ar -rv libmathutils.a zmatrix_vector_mult.o
a - zmatrix_vector_mult.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o znorm.o znorm.c
ar -rv libmathutils.a znorm.o
a - znorm.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o znormsq.o znormsq.c
ar -rv libmathutils.a znormsq.o
a - znormsq.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o zrscale_vector.o zrscale_vector.c
ar -rv libmathutils.a zrscale_vector.o
a - zrscale_vector.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o zscale_vector.o zscale_vector.c
ar -rv libmathutils.a zscale_vector.o
a - zscale_vector.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o zsum_vector.o zsum_vector.c
ar -rv libmathutils.a zsum_vector.o
a - zsum_vector.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o zsym_linsolve.o zsym_linsolve.c
ar -rv libmathutils.a zsym_linsolve.o
a - zsym_linsolve.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o zmatrix_add.o zmatrix_add.c
ar -rv libmathutils.a zmatrix_add.o
a - zmatrix_add.o
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -c -o zmatrix_sub.o zmatrix_sub.c
ar -rv libmathutils.a zmatrix_sub.o
a - zmatrix_sub.o
ranlib ./libmathutils.a
make: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/mathutils'
+ export 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17'
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17'
+ mkdir -p cvode-2.6.0/build
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17'
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations'
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -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
+ /usr/bin/cmake -S . -B cvode-2.6.0/build -DCMAKE_C_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_CXX_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_Fortran_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON -DCMAKE_INSTALL_DO_STRIP:BOOL=OFF -DCMAKE_INSTALL_PREFIX:PATH=/usr -DCMAKE_INSTALL_FULL_SBINDIR:PATH=/usr/bin -DCMAKE_INSTALL_SBINDIR:PATH=bin -DINCLUDE_INSTALL_DIR:PATH=/usr/include -DLIB_INSTALL_DIR:PATH=/usr/lib64 -DSYSCONF_INSTALL_DIR:PATH=/etc -DSHARE_INSTALL_PREFIX:PATH=/usr/share -DLIB_SUFFIX=64 -DBUILD_SHARED_LIBS:BOOL=ON -S cvode-2.6.0 -B cvode-2.6.0/build '-DCMAKE_MODULE_LINKER_FLAGS:STRING=-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' -DCMAKE_INSTALL_PREFIX=/usr -DEXAMPLES_ENABLE=OFF -DEXAMPLES_INSTALL=OFF -DBUILD_SHARED_LIBS:BOOL=OFF -DBUILD_STATIC_LIBS:BOOL=ON -DMPI_ENABLE:BOOL=OFF -DFCMIX_ENABLE:BOOL=ON
CMake Warning:
  Ignoring extra path from command line:

   "/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3"


-- The C compiler identification is GNU 15.1.1
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/gcc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- The Fortran compiler identification is GNU 15.1.1
-- Searching for a Fortran compiler... /usr/bin/gfortran
CMake Warning (dev) at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:1 (PROJECT):
  cmake_minimum_required() should be called prior to this top-level project()
  call.  Please see the cmake-commands(7) manual for usage documentation of
  both commands.
This warning is for project developers.  Use -Wno-dev to suppress it.

-- Trying to compile and link a simple Fortran program... OK
CMake Warning (dev) at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:1 (PROJECT):
  cmake_minimum_required() should be called prior to this top-level project()
  call.  Please see the cmake-commands(7) manual for usage documentation of
  both commands.
This warning is for project developers.  Use -Wno-dev to suppress it.

CMake Warning (dev) in /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:
  No cmake_minimum_required command is present.  A line of code such as

    cmake_minimum_required(VERSION 3.31)

  should be added at the top of the file.  The version specified may be lower
  if you wish to support older CMake versions for this project.  For more
  information run "cmake --help-policy CMP0000".
This warning is for project developers.  Use -Wno-dev to suppress it.

CMake Warning (dev) at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:1 (PROJECT):
  cmake_minimum_required() should be called prior to this top-level project()
  call.  Please see the cmake-commands(7) manual for usage documentation of
  both commands.
This warning is for project developers.  Use -Wno-dev to suppress it.

CMake Warning (dev) in /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:
  No cmake_minimum_required command is present.  A line of code such as

    cmake_minimum_required(VERSION 3.31)

  should be added at the top of the file.  The version specified may be lower
  if you wish to support older CMake versions for this project.  For more
  information run "cmake --help-policy CMP0000".
This warning is for project developers.  Use -Wno-dev to suppress it.

CMake Warning (dev) at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:1 (PROJECT):
  cmake_minimum_required() should be called prior to this top-level project()
  call.  Please see the cmake-commands(7) manual for usage documentation of
  both commands.
This warning is for project developers.  Use -Wno-dev to suppress it.

CMake Warning (dev) in /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:
  No cmake_minimum_required command is present.  A line of code such as

    cmake_minimum_required(VERSION 3.31)

  should be added at the top of the file.  The version specified may be lower
  if you wish to support older CMake versions for this project.  For more
  information run "cmake --help-policy CMP0000".
This warning is for project developers.  Use -Wno-dev to suppress it.

CMake Warning (dev) at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:1 (PROJECT):
  cmake_minimum_required() should be called prior to this top-level project()
  call.  Please see the cmake-commands(7) manual for usage documentation of
  both commands.
This warning is for project developers.  Use -Wno-dev to suppress it.

CMake Warning (dev) in /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:
  No cmake_minimum_required command is present.  A line of code such as

    cmake_minimum_required(VERSION 3.31)

  should be added at the top of the file.  The version specified may be lower
  if you wish to support older CMake versions for this project.  For more
  information run "cmake --help-policy CMP0000".
This warning is for project developers.  Use -Wno-dev to suppress it.

-- Determining Fortran name-mangling scheme... OK
-- Added NVECTOR_SERIAL module
-- Added CVODE module
-- Added CVODE FCMIX module
-- Configuring done (1.8s)
-- Generating done (0.0s)
CMake Warning:
  Manually-specified variables were not used by the project:

    CMAKE_CXX_FLAGS_RELEASE
    CMAKE_INSTALL_DO_STRIP
    CMAKE_INSTALL_FULL_SBINDIR
    CMAKE_INSTALL_SBINDIR
    CMAKE_MODULE_LINKER_FLAGS
    INCLUDE_INSTALL_DIR
    LIB_INSTALL_DIR
    LIB_SUFFIX
    SHARE_INSTALL_PREFIX
    SYSCONF_INSTALL_DIR


-- Build files have been written to: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build
+ /usr/bin/cmake --build cvode-2.6.0/build -j4 --verbose
Change Dir: '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'

Run Build Command(s): /usr/bin/cmake -E env VERBOSE=1 /usr/bin/gmake -f Makefile -j4
/usr/bin/cmake -S/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0 -B/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build --check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/CMakeFiles /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build//CMakeFiles/progress.marks
/usr/bin/gmake  -f CMakeFiles/Makefile2 all
gmake[1]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
/usr/bin/gmake  -f src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/build.make src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/depend
/usr/bin/gmake  -f src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/build.make src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/depend
/usr/bin/gmake  -f src/cvode/CMakeFiles/sundials_cvode_static.dir/build.make src/cvode/CMakeFiles/sundials_cvode_static.dir/depend
/usr/bin/gmake  -f src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/build.make src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/depend
gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0 /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/DependInfo.cmake "--color="
gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0 /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/DependInfo.cmake "--color="
gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0 /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/CMakeFiles/sundials_cvode_static.dir/DependInfo.cmake "--color="
gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0 /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/DependInfo.cmake "--color="
gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
/usr/bin/gmake  -f src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/build.make src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/build
gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
/usr/bin/gmake  -f src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/build.make src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/build
gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
/usr/bin/gmake  -f src/cvode/CMakeFiles/sundials_cvode_static.dir/build.make src/cvode/CMakeFiles/sundials_cvode_static.dir/build
gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
/usr/bin/gmake  -f src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/build.make src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/build
gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
[  2%] Building C object src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/fnvector_serial.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser/. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/fnvector_serial.c.o -MF CMakeFiles/sundials_fnvecserial_static.dir/fnvector_serial.c.o.d -o CMakeFiles/sundials_fnvecserial_static.dir/fnvector_serial.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser/fnvector_serial.c
[  5%] Building C object src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/nvector_serial.c.o
[  8%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser/. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/nvector_serial.c.o -MF CMakeFiles/sundials_nvecserial_static.dir/nvector_serial.c.o.d -o CMakeFiles/sundials_nvecserial_static.dir/nvector_serial.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser/nvector_serial.c
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode.c
[ 10%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvband.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvband.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvband.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvband.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvband.c
[ 13%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvbbd.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvbbd.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvbbd.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvbbd.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvbbd.c
[ 16%] Linking C static library libsundials_fnvecserial.a
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/cmake -P CMakeFiles/sundials_fnvecserial_static.dir/cmake_clean_target.cmake
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/cmake -E cmake_link_script CMakeFiles/sundials_fnvecserial_static.dir/link.txt --verbose=1
/usr/bin/ar qc libsundials_fnvecserial.a CMakeFiles/sundials_fnvecserial_static.dir/fnvector_serial.c.o
/usr/bin/ranlib libsundials_fnvecserial.a
gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
[ 16%] Built target sundials_fnvecserial_static
[ 18%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvbp.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvbp.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvbp.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvbp.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvbp.c
[ 21%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvdense.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvdense.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvdense.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvdense.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvdense.c
[ 24%] Building C object src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/__/sundials/sundials_math.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser/. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/__/sundials/sundials_math.c.o -MF CMakeFiles/sundials_nvecserial_static.dir/__/sundials/sundials_math.c.o.d -o CMakeFiles/sundials_nvecserial_static.dir/__/sundials/sundials_math.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_math.c
[ 27%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvewt.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvewt.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvewt.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvewt.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvewt.c
[ 29%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvjtimes.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvjtimes.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvjtimes.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvjtimes.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvjtimes.c
[ 32%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_io.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_io.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_io.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_io.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_io.c
[ 35%] Linking C static library libsundials_nvecserial.a
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/cmake -P CMakeFiles/sundials_nvecserial_static.dir/cmake_clean_target.cmake
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/cmake -E cmake_link_script CMakeFiles/sundials_nvecserial_static.dir/link.txt --verbose=1
[ 37%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvode.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvode.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvode.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvode.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvode.c
/usr/bin/ar qc libsundials_nvecserial.a CMakeFiles/sundials_nvecserial_static.dir/nvector_serial.c.o CMakeFiles/sundials_nvecserial_static.dir/__/sundials/sundials_math.c.o
/usr/bin/ranlib libsundials_nvecserial.a
gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
[ 37%] Built target sundials_nvecserial_static
[ 40%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvpreco.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvpreco.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvpreco.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvpreco.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvpreco.c
[ 43%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvroot.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvroot.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvroot.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvroot.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvroot.c
[ 45%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_direct.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_direct.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_direct.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_direct.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_direct.c
[ 48%] Linking C static library libsundials_fcvode.a
[ 51%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_band.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_band.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_band.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_band.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_band.c
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/cmake -P CMakeFiles/sundials_fcvode_static.dir/cmake_clean_target.cmake
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/cmake -E cmake_link_script CMakeFiles/sundials_fcvode_static.dir/link.txt --verbose=1
/usr/bin/ar qc libsundials_fcvode.a CMakeFiles/sundials_fcvode_static.dir/fcvband.c.o CMakeFiles/sundials_fcvode_static.dir/fcvbbd.c.o CMakeFiles/sundials_fcvode_static.dir/fcvbp.c.o CMakeFiles/sundials_fcvode_static.dir/fcvdense.c.o CMakeFiles/sundials_fcvode_static.dir/fcvewt.c.o CMakeFiles/sundials_fcvode_static.dir/fcvjtimes.c.o CMakeFiles/sundials_fcvode_static.dir/fcvode.c.o CMakeFiles/sundials_fcvode_static.dir/fcvpreco.c.o CMakeFiles/sundials_fcvode_static.dir/fcvroot.c.o
/usr/bin/ranlib libsundials_fcvode.a
gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
[ 51%] Built target sundials_fcvode_static
[ 54%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_dense.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_dense.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_dense.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_dense.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_dense.c
[ 56%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_diag.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_diag.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_diag.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_diag.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_diag.c
[ 59%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_spils.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_spils.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_spils.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_spils.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_spils.c
[ 62%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_spbcgs.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_spbcgs.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_spbcgs.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_spbcgs.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_spbcgs.c
[ 64%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_spgmr.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_spgmr.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_spgmr.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_spgmr.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_spgmr.c
[ 67%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_sptfqmr.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_sptfqmr.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_sptfqmr.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_sptfqmr.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_sptfqmr.c
[ 70%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_bandpre.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_bandpre.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_bandpre.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_bandpre.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_bandpre.c
[ 72%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_bbdpre.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_bbdpre.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_bbdpre.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_bbdpre.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_bbdpre.c
[ 75%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_nvector.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_nvector.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_nvector.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_nvector.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_nvector.c
[ 78%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_math.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_math.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_math.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_math.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_math.c
[ 81%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_direct.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_direct.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_direct.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_direct.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_direct.c
[ 83%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_band.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_band.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_band.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_band.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_band.c
[ 86%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_dense.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_dense.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_dense.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_dense.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_dense.c
[ 89%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_iterative.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_iterative.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_iterative.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_iterative.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_iterative.c
[ 91%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spbcgs.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spbcgs.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spbcgs.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spbcgs.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_spbcgs.c
[ 94%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spgmr.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spgmr.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spgmr.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spgmr.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_spgmr.c
[ 97%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_sptfqmr.c.o
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_sptfqmr.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_sptfqmr.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_sptfqmr.c.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_sptfqmr.c
[100%] Linking C static library libsundials_cvode.a
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/cmake -P CMakeFiles/sundials_cvode_static.dir/cmake_clean_target.cmake
cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/cmake -E cmake_link_script CMakeFiles/sundials_cvode_static.dir/link.txt --verbose=1
/usr/bin/ar qc libsundials_cvode.a CMakeFiles/sundials_cvode_static.dir/cvode.c.o CMakeFiles/sundials_cvode_static.dir/cvode_io.c.o CMakeFiles/sundials_cvode_static.dir/cvode_direct.c.o CMakeFiles/sundials_cvode_static.dir/cvode_band.c.o CMakeFiles/sundials_cvode_static.dir/cvode_dense.c.o CMakeFiles/sundials_cvode_static.dir/cvode_diag.c.o CMakeFiles/sundials_cvode_static.dir/cvode_spils.c.o CMakeFiles/sundials_cvode_static.dir/cvode_spbcgs.c.o CMakeFiles/sundials_cvode_static.dir/cvode_spgmr.c.o CMakeFiles/sundials_cvode_static.dir/cvode_sptfqmr.c.o CMakeFiles/sundials_cvode_static.dir/cvode_bandpre.c.o CMakeFiles/sundials_cvode_static.dir/cvode_bbdpre.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_nvector.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_math.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_direct.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_band.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_dense.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_iterative.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spbcgs.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spgmr.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_sptfqmr.c.o
/usr/bin/ranlib libsundials_cvode.a
gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
[100%] Built target sundials_cvode_static
gmake[1]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build'
/usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/CMakeFiles 0

+ export 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -I../src/util/mathutils -I../cvode-2.6.0/include -I../muparser_v2_2_4/include'
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -I../src/util/mathutils -I../cvode-2.6.0/include -I../muparser_v2_2_4/include'
+ export 'CXXFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include  -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser'
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include  -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser'
+ mkdir -p build
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-unused-variable -Wno-unused-but-set-variable -std=gnu17 -I../src/util/mathutils -I../cvode-2.6.0/include -I../muparser_v2_2_4/include'
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include  -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser'
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -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
+ /usr/bin/cmake -S . -B build -DCMAKE_C_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_CXX_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_Fortran_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON -DCMAKE_INSTALL_DO_STRIP:BOOL=OFF -DCMAKE_INSTALL_PREFIX:PATH=/usr -DCMAKE_INSTALL_FULL_SBINDIR:PATH=/usr/bin -DCMAKE_INSTALL_SBINDIR:PATH=bin -DINCLUDE_INSTALL_DIR:PATH=/usr/include -DLIB_INSTALL_DIR:PATH=/usr/lib64 -DSYSCONF_INSTALL_DIR:PATH=/etc -DSHARE_INSTALL_PREFIX:PATH=/usr/share -DLIB_SUFFIX=64 -DBUILD_SHARED_LIBS:BOOL=ON -DCMAKE_SKIP_RPATH:BOOL=YES -DCMAKE_SKIP_INSTALL_RPATH:BOOL=YES -DBUILD_SHARED_LIBS:BOOL=OFF -DBUILD_STATIC_LIBS:BOOL=ON
-- The C compiler identification is GNU 15.1.1
-- The CXX compiler identification is GNU 15.1.1
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/gcc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/g++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Configuring done (0.8s)
-- Generating done (0.0s)
CMake Warning:
  Manually-specified variables were not used by the project:

    BUILD_SHARED_LIBS
    BUILD_STATIC_LIBS
    CMAKE_CXX_FLAGS_RELEASE
    CMAKE_C_FLAGS_RELEASE
    CMAKE_Fortran_FLAGS_RELEASE
    CMAKE_INSTALL_DO_STRIP
    CMAKE_INSTALL_FULL_SBINDIR
    CMAKE_INSTALL_SBINDIR
    CMAKE_SKIP_INSTALL_RPATH
    INCLUDE_INSTALL_DIR
    LIB_INSTALL_DIR
    LIB_SUFFIX
    SHARE_INSTALL_PREFIX
    SYSCONF_INSTALL_DIR


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+ /usr/bin/cmake --build build -j4 --verbose
Change Dir: '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build'

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cd /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build/CMakeFiles/run_network.dir/DependInfo.cmake "--color="
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/usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include  -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/network.cpp.o -MF CMakeFiles/run_network.dir/src/network.cpp.o.d -o CMakeFiles/run_network.dir/src/network.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp
/usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include  -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/network3.cpp.o -MF CMakeFiles/run_network.dir/src/network3.cpp.o.d -o CMakeFiles/run_network.dir/src/network3.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network3.cpp
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/usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include  -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/function.cpp.o -MF CMakeFiles/run_network.dir/src/model/function.cpp.o.d -o CMakeFiles/run_network.dir/src/model/function.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/function.cpp
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void read_functions_array(const char*, Elt_array*&, std::map<std::__cxx11::basic_string<char>, double*>&, std::map<std::__cxx11::basic_string<char>, int>, std::map<std::__cxx11::basic_string<char>, int>, double*)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:440:13: warning: variable ‘index’ set but not used [-Wunused-but-set-variable]
  440 |         int index;
      |             ^~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp: In function ‘int main(int, char**)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:95:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
   95 |         register int i/*, j*/;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘Rxn* new_Rxn(int, int, int, int*, int*, int, int, int*, double, Elt_array*)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:1132:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 1132 |         register int i;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int* read_indices_Rxn(char*, int*, Elt_array*, int)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:1543:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 1543 |         register int i;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void print_Rxn_array(FILE*, Rxn_array*, Elt_array*, Elt_array*)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:1925:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 1925 |         register int i;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:1927:15: warning: variable ‘sarr’ set but not used [-Wunused-but-set-variable]
 1927 |         Elt **sarr, **rarr;
      |               ^~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int n_species_active()’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2068:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 2068 |         register int i;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int get_conc_network(double*)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2088:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 2088 |         register int i;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int set_conc_network(double*)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2110:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 2110 |         register int i, n_species;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2110:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 2110 |         register int i, n_species;
      |                         ^~~~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int rxn_rates_network(double*, int)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2729:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 2729 |         register int i;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void derivs_network(double, double*, double*)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2782:15: warning: unused variable ‘rarray’ [-Wunused-variable]
 2782 |         Rxn **rarray, *rxn;
      |               ^~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2783:15: warning: variable ‘rates’ set but not used [-Wunused-but-set-variable]
 2783 |         Elt** rates;
      |               ^~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int print_derivs_network(FILE*)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2957:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 2957 |         register int i/*,j*/;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int print_derivs_species_network(FILE*)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2990:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 2990 |         register int i/*,j*/;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int print_rates_network(FILE*, int)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3019:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 3019 |         register int i;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void sparse_jac_matlab(FILE*)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3198:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 3198 |         register int i, j, r, n;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3198:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 3198 |         register int i, j, r, n;
      |                         ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3198:28: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 3198 |         register int i, j, r, n;
      |                            ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3198:31: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 3198 |         register int i, j, r, n;
      |                               ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3204:15: warning: variable ‘rates’ set but not used [-Wunused-but-set-variable]
 3204 |         Elt** rates;
      |               ^~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void CVjac_network(long int, DlsMat, realtype, N_Vector, N_Vector, void*, N_Vector, N_Vector, N_Vector)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3272:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 3272 |         register int i, j, r, n;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3272:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 3272 |         register int i, j, r, n;
      |                         ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3272:28: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 3272 |         register int i, j, r, n;
      |                            ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3272:31: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 3272 |         register int i, j, r, n;
      |                               ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3277:15: warning: variable ‘rates’ set but not used [-Wunused-but-set-variable]
 3277 |         Elt** rates;
      |               ^~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int CVjtimes(N_Vector, N_Vector, realtype, N_Vector, N_Vector, void*, N_Vector)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3333:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 3333 |         register int i, j, r, n;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3333:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 3333 |         register int i, j, r, n;
      |                         ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3333:28: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 3333 |         register int i, j, r, n;
      |                            ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3333:31: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 3333 |         register int i, j, r, n;
      |                               ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3338:15: warning: variable ‘rates’ set but not used [-Wunused-but-set-variable]
 3338 |         Elt** rates;
      |               ^~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int print_flux_network(FILE*, double, int)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4037:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
 4037 |         register int i;
      |                      ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void print_rxn_update_list(FILE*)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4376:29: warning: variable ‘rxn’ set but not used [-Wunused-but-set-variable]
 4376 |         Rxn /* **rarray,*/ *rxn;
      |                             ^~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void print_as_reactant_list(FILE*)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4410:13: warning: variable ‘offset’ set but not used [-Wunused-but-set-variable]
 4410 |         int offset;
      |             ^~~~~~
[  9%] Building CXX object CMakeFiles/run_network.dir/src/model/observable.cpp.o
/usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include  -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/observable.cpp.o -MF CMakeFiles/run_network.dir/src/model/observable.cpp.o.d -o CMakeFiles/run_network.dir/src/model/observable.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/observable.cpp
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int create_update_lists()’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4757:37: warning: unused variable ‘pp’ [-Wunused-variable]
 4757 |                                 int pp = GSP.func_param_affect.at(ff)-1;
      |                                     ^~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:735:84: warning: variable ‘n_deriv_calls_last’ set but not used [-Wunused-but-set-variable]
  735 |                 long int /*n_steps = 0, n_steps_last = 0,*/ n_rate_calls_last = 0, n_deriv_calls_last = 0;
      |                                                                                    ^~~~~~~~~~~~~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int init_gillespie_direct_network(int, int)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4837:15: warning: unused variable ‘rarray’ [-Wunused-variable]
 4837 |         Rxn** rarray;
      |               ^~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int init_adaptive_scaling_network(int, int, double, bool)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4905:15: warning: unused variable ‘rarray’ [-Wunused-variable]
 4905 |         Rxn** rarray;
      |               ^~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int update_gillespie_direct_network(int, int)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4978:13: warning: unused variable ‘ip’ [-Wunused-variable]
 4978 |         int ip, ir, is, irxn;
      |             ^~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4978:17: warning: unused variable ‘ir’ [-Wunused-variable]
 4978 |         int ip, ir, is, irxn;
      |                 ^~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4978:21: warning: unused variable ‘is’ [-Wunused-variable]
 4978 |         int ip, ir, is, irxn;
      |                     ^~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4978:25: warning: unused variable ‘irxn’ [-Wunused-variable]
 4978 |         int ip, ir, is, irxn;
      |                         ^~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4980:14: warning: unused variable ‘rxn_dep’ [-Wunused-variable]
 4980 |         int *rxn_dep/*, *rxn_dep2, *rxn_dep3*/; /* boolean arrays to keep track of dependent
      |              ^~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4983:17: warning: unused variable ‘arl’ [-Wunused-variable]
 4983 |         iarray *arl, *apl, *rul; /* species and reaction update lists */
      |                 ^~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4983:23: warning: unused variable ‘apl’ [-Wunused-variable]
 4983 |         iarray *arl, *apl, *rul; /* species and reaction update lists */
      |                       ^~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4983:29: warning: unused variable ‘rul’ [-Wunused-variable]
 4983 |         iarray *arl, *apl, *rul; /* species and reaction update lists */
      |                             ^~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4984:13: warning: unused variable ‘offset’ [-Wunused-variable]
 4984 |         int offset, r_index, p_index;
      |             ^~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4984:21: warning: unused variable ‘r_index’ [-Wunused-variable]
 4984 |         int offset, r_index, p_index;
      |                     ^~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4984:30: warning: unused variable ‘p_index’ [-Wunused-variable]
 4984 |         int offset, r_index, p_index;
      |                              ^~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4985:15: warning: unused variable ‘rarray’ [-Wunused-variable]
 4985 |         Rxn **rarray, *rxn;
      |               ^~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4985:24: warning: unused variable ‘rxn’ [-Wunused-variable]
 4985 |         Rxn **rarray, *rxn;
      |                        ^~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int update_adaptive_scaling_network(int, int)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5160:13: warning: unused variable ‘ip’ [-Wunused-variable]
 5160 |         int ip, ir, is, irxn;
      |             ^~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5160:17: warning: unused variable ‘ir’ [-Wunused-variable]
 5160 |         int ip, ir, is, irxn;
      |                 ^~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5160:21: warning: unused variable ‘is’ [-Wunused-variable]
 5160 |         int ip, ir, is, irxn;
      |                     ^~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5160:25: warning: unused variable ‘irxn’ [-Wunused-variable]
 5160 |         int ip, ir, is, irxn;
      |                         ^~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5162:14: warning: unused variable ‘rxn_dep’ [-Wunused-variable]
 5162 |         int *rxn_dep/*, *rxn_dep2, *rxn_dep3*/; /* boolean arrays to keep track of dependent
      |              ^~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5165:17: warning: unused variable ‘arl’ [-Wunused-variable]
 5165 |         iarray *arl, *apl, *rul; /* species and reaction update lists */
      |                 ^~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5165:23: warning: unused variable ‘apl’ [-Wunused-variable]
 5165 |         iarray *arl, *apl, *rul; /* species and reaction update lists */
      |                       ^~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5165:29: warning: unused variable ‘rul’ [-Wunused-variable]
 5165 |         iarray *arl, *apl, *rul; /* species and reaction update lists */
      |                             ^~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5166:13: warning: unused variable ‘offset’ [-Wunused-variable]
 5166 |         int offset, r_index, p_index;
      |             ^~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5166:21: warning: unused variable ‘r_index’ [-Wunused-variable]
 5166 |         int offset, r_index, p_index;
      |                     ^~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5166:30: warning: unused variable ‘p_index’ [-Wunused-variable]
 5166 |         int offset, r_index, p_index;
      |                              ^~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5167:15: warning: unused variable ‘rarray’ [-Wunused-variable]
 5167 |         Rxn **rarray, *rxn;
      |               ^~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5167:24: warning: unused variable ‘rxn’ [-Wunused-variable]
 5167 |         Rxn **rarray, *rxn;
      |                        ^~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void update_rxn_rates(int)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5683:27: warning: variable ‘c’ set but not used [-Wunused-but-set-variable]
 5683 |         double *a, anew, *c;
      |                           ^
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void update_rxn_rates_has(int, double, bool)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5747:27: warning: variable ‘c’ set but not used [-Wunused-but-set-variable]
 5747 |         double *a, anew, *c;
      |                           ^
In file included from /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network3.hh:12,
                 from /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:46:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.h: At global scope:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.h:262:23: warning: ‘mu::value_type Mratio(mu::value_type, mu::value_type, mu::value_type)’ defined but not used [-Wunused-function]
  262 | static mu::value_type Mratio(mu::value_type a, mu::value_type b, mu::value_type z){
      |                       ^~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.h:258:23: warning: ‘mu::value_type If(mu::value_type, mu::value_type, mu::value_type)’ defined but not used [-Wunused-function]
  258 | static mu::value_type If(mu::value_type v1, mu::value_type v2, mu::value_type v3){
      |                       ^~
In file included from /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:39:
../src/util/mathutils/mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable]
  364 | static double dswap;
      |               ^~~~~
../src/util/mathutils/mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable]
  359 | static int imarg1, imarg2;
      |                    ^~~~~~
../src/util/mathutils/mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable]
  359 | static int imarg1, imarg2;
      |            ^~~~~~
../src/util/mathutils/mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable]
  356 | static double marg1, marg2;
      |                      ^~~~~
../src/util/mathutils/mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable]
  356 | static double marg1, marg2;
      |               ^~~~~
../src/util/mathutils/mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable]
  354 | static int isqrarg;
      |            ^~~~~~~
../src/util/mathutils/mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable]
  352 | static double sqrarg;
      |               ^~~~~~
In file included from /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network3.hh:12,
                 from /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network3.cpp:8:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.h:262:23: warning: ‘mu::value_type Mratio(mu::value_type, mu::value_type, mu::value_type)’ defined but not used [-Wunused-function]
  262 | static mu::value_type Mratio(mu::value_type a, mu::value_type b, mu::value_type z){
      |                       ^~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.h:258:23: warning: ‘mu::value_type If(mu::value_type, mu::value_type, mu::value_type)’ defined but not used [-Wunused-function]
  258 | static mu::value_type If(mu::value_type v1, mu::value_type v2, mu::value_type v3){
      |                       ^~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: At global scope:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3332:12: warning: ‘int CVjtimes(N_Vector, N_Vector, realtype, N_Vector, N_Vector, void*, N_Vector)’ defined but not used [-Wunused-function]
 3332 | static int CVjtimes(N_Vector v, N_Vector Jv, realtype t, N_Vector y, N_Vector fy, void* jac_data, N_Vector tmp) {
      |            ^~~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3270:13: warning: ‘void CVjac_network(long int, DlsMat, realtype, N_Vector, N_Vector, void*, N_Vector, N_Vector, N_Vector)’ defined but not used [-Wunused-function]
 3270 | static void CVjac_network(long int N, DlsMat J, realtype t, N_Vector y, N_Vector fy, void* jac_data, N_Vector tmp1, N_Vector tmp2,
      |             ^~~~~~~~~~~~~
In file included from /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:38:
../src/util/mathutils/mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable]
  364 | static double dswap;
      |               ^~~~~
../src/util/mathutils/mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable]
  356 | static double marg1, marg2;
      |                      ^~~~~
../src/util/mathutils/mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable]
  356 | static double marg1, marg2;
      |               ^~~~~
../src/util/mathutils/mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable]
  354 | static int isqrarg;
      |            ^~~~~~~
../src/util/mathutils/mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable]
  352 | static double sqrarg;
      |               ^~~~~~
[ 10%] Building CXX object CMakeFiles/run_network.dir/src/model/rateExpression.cpp.o
/usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include  -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/rateExpression.cpp.o -MF CMakeFiles/run_network.dir/src/model/rateExpression.cpp.o.d -o CMakeFiles/run_network.dir/src/model/rateExpression.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpression.cpp
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp: In function ‘main’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:588:20: warning: ‘sample_time’ may be used uninitialized [-Wmaybe-uninitialized]
  588 |         else t_end = t_start + (double)n_sample*sample_time;
      |              ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:106:12: note: ‘sample_time’ was declared here
  106 |     double sample_time, *sample_times = 0x0/*, *st, t1*/;
      |            ^~~~~~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:1014:47: warning: ‘derivs’ may be used uninitialized [-Wmaybe-uninitialized]
 1014 |                                 derivs_network(t, conc, derivs);
      |                                 ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:117:32: note: ‘derivs’ was declared here
  117 |     double *conc, *conc_last, *derivs;
      |                                ^~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:1009:49: warning: ‘conc’ may be used uninitialized [-Wmaybe-uninitialized]
 1009 |                                 get_conc_network(conc);
      |                                 ~~~~~~~~~~~~~~~~^~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:117:13: note: ‘conc’ was declared here
  117 |     double *conc, *conc_last, *derivs;
      |             ^~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:1010:45: warning: ‘conc_last’ may be used uninitialized [-Wmaybe-uninitialized]
 1010 |                                 delta = sqrt(VECTOR_DIST(conc, conc_last, n_species_network())) / n_species_network();
      |                                         ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:117:20: note: ‘conc_last’ was declared here
  117 |     double *conc, *conc_last, *derivs;
      |                    ^~~~~~~~~
[ 12%] Building CXX object CMakeFiles/run_network.dir/src/model/reaction.cpp.o
/usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include  -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/reaction.cpp.o -MF CMakeFiles/run_network.dir/src/model/reaction.cpp.o.d -o CMakeFiles/run_network.dir/src/model/reaction.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reaction.cpp
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘rxn_rate(RXN*, double*, int)’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2303:22: warning: ‘rate’ may be used uninitialized [-Wmaybe-uninitialized]
 2303 |         if (discrete && rate < 0.0){
      |             ~~~~~~~~~^~~~~~~~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2126:16: note: ‘rate’ was declared here
 2126 |         double rate;
      |                ^~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘rxn_rate_scaled(RXN*, double*, int, double&, double, bool) [clone .constprop.0]’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2703:22: warning: ‘rate’ may be used uninitialized [-Wmaybe-uninitialized]
 2703 |         if (discrete && rate < 0.0){
      |             ~~~~~~~~~^~~~~~~~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2328:16: note: ‘rate’ was declared here
 2328 |         double rate;
      |                ^~~~
[ 14%] Building CXX object CMakeFiles/run_network.dir/src/model/simpleSpecies.cpp.o
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[ 16%] Building CXX object CMakeFiles/run_network.dir/src/pla/PLA.cpp.o
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/usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include  -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/util/rand.cpp.o -MF CMakeFiles/run_network.dir/src/util/rand.cpp.o.d -o CMakeFiles/run_network.dir/src/util/rand.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand.cpp
[ 23%] Building CXX object CMakeFiles/run_network.dir/src/model/rateExpressions/rateElementary.cpp.o
/usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include  -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/rateExpressions/rateElementary.cpp.o -MF CMakeFiles/run_network.dir/src/model/rateExpressions/rateElementary.cpp.o.d -o CMakeFiles/run_network.dir/src/model/rateExpressions/rateElementary.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions/rateElementary.cpp
[ 25%] Building CXX object CMakeFiles/run_network.dir/src/model/rateExpressions/rateHill.cpp.o
/usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include  -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/rateExpressions/rateHill.cpp.o -MF CMakeFiles/run_network.dir/src/model/rateExpressions/rateHill.cpp.o.d -o CMakeFiles/run_network.dir/src/model/rateExpressions/rateHill.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions/rateHill.cpp
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘create_update_lists()’:
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4474:27: warning: ‘rarray’ may be used uninitialized [-Wmaybe-uninitialized]
 4474 |                 if (!(rxn = rarray[i]))
      |                      ~~~~~^~~~~~~~~~~~
/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4459:15: note: ‘rarray’ was declared here
 4459 |         Rxn **rarray, *rxn;
      |               ^~~~~~
[ 27%] Building CXX object CMakeFiles/run_network.dir/src/model/rateExpressions/rateMM.cpp.o
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[ 29%] Building CXX object CMakeFiles/run_network.dir/src/model/rateExpressions/rateMuParser.cpp.o
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[ 30%] Building CXX object CMakeFiles/run_network.dir/src/model/rateExpressions/rateSaturation.cpp.o
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[ 32%] Building CXX object CMakeFiles/run_network.dir/src/model/reactions/bioNetGenRxn.cpp.o
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[ 36%] Building CXX object CMakeFiles/run_network.dir/src/model/reactions/functionalRxn.cpp.o
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[ 41%] Building CXX object CMakeFiles/run_network.dir/src/model/reactions/saturationRxn.cpp.o
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[ 43%] Building CXX object CMakeFiles/run_network.dir/src/pla/base/firingGenerator.cpp.o
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[ 45%] Building CXX object CMakeFiles/run_network.dir/src/pla/base/postleapChecker.cpp.o
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[ 47%] Building CXX object CMakeFiles/run_network.dir/src/pla/base/rxnClassifier.cpp.o
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[ 63%] Building CXX object CMakeFiles/run_network.dir/src/pla/fEuler/fEulerRB_PL.cpp.o
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[ 80%] Building CXX object CMakeFiles/run_network.dir/src/pla/util/preleap_TC.cpp.o
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[ 81%] Building CXX object CMakeFiles/run_network.dir/src/pla/util/rbChecker.cpp.o
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[100%] Linking CXX executable run_network
/usr/bin/cmake -E cmake_link_script CMakeFiles/run_network.dir/link.txt --verbose=1
/usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  -Wno-deprecated-declarations -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include  -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -Wl,--dependency-file=CMakeFiles/run_network.dir/link.d CMakeFiles/run_network.dir/src/network.cpp.o CMakeFiles/run_network.dir/src/network3.cpp.o CMakeFiles/run_network.dir/src/run_network.cpp.o CMakeFiles/run_network.dir/src/model/function.cpp.o CMakeFiles/run_network.dir/src/model/observable.cpp.o CMakeFiles/run_network.dir/src/model/rateExpression.cpp.o CMakeFiles/run_network.dir/src/model/reaction.cpp.o CMakeFiles/run_network.dir/src/model/simpleSpecies.cpp.o CMakeFiles/run_network.dir/src/pla/PLA.cpp.o CMakeFiles/run_network.dir/src/util/conversion.cpp.o CMakeFiles/run_network.dir/src/util/misc.cpp.o CMakeFiles/run_network.dir/src/util/rand.cpp.o CMakeFiles/run_network.dir/src/model/rateExpressions/rateElementary.cpp.o CMakeFiles/run_network.dir/src/model/rateExpressions/rateHill.cpp.o CMakeFiles/run_network.dir/src/model/rateExpressions/rateMM.cpp.o CMakeFiles/run_network.dir/src/model/rateExpressions/rateMuParser.cpp.o CMakeFiles/run_network.dir/src/model/rateExpressions/rateSaturation.cpp.o CMakeFiles/run_network.dir/src/model/reactions/bioNetGenRxn.cpp.o CMakeFiles/run_network.dir/src/model/reactions/elementaryRxn.cpp.o CMakeFiles/run_network.dir/src/model/reactions/functionalRxn.cpp.o CMakeFiles/run_network.dir/src/model/reactions/hillRxn.cpp.o CMakeFiles/run_network.dir/src/model/reactions/michaelisMentenRxn.cpp.o CMakeFiles/run_network.dir/src/model/reactions/saturationRxn.cpp.o CMakeFiles/run_network.dir/src/pla/base/firingGenerator.cpp.o CMakeFiles/run_network.dir/src/pla/base/postleapChecker.cpp.o CMakeFiles/run_network.dir/src/pla/base/rxnClassifier.cpp.o CMakeFiles/run_network.dir/src/pla/base/tauCalculator.cpp.o CMakeFiles/run_network.dir/src/pla/eRungeKutta/eRungeKutta_postTC_RC_FG_rbPL.cpp.o CMakeFiles/run_network.dir/src/pla/eRungeKutta/eRungeKutta_postTC_RC_FG_sbPL.cpp.o CMakeFiles/run_network.dir/src/pla/eRungeKutta/eRungeKutta_preTC_RC_FG_negPL.cpp.o CMakeFiles/run_network.dir/src/pla/eRungeKutta/eRungeKutta_preTC_RC_FG_rbPL.cpp.o CMakeFiles/run_network.dir/src/pla/eRungeKutta/eRungeKutta_preTC_RC_FG_sbPL.cpp.o CMakeFiles/run_network.dir/src/pla/fEuler/fEulerPreleapRB_TC.cpp.o CMakeFiles/run_network.dir/src/pla/fEuler/fEulerPreleapSB_TC.cpp.o CMakeFiles/run_network.dir/src/pla/fEuler/fEulerRB_PL.cpp.o CMakeFiles/run_network.dir/src/pla/fEuler/fEulerRB_TC_PL.cpp.o CMakeFiles/run_network.dir/src/pla/fEuler/fEulerSB_PL.cpp.o CMakeFiles/run_network.dir/src/pla/fEuler/fEulerSB_TC_PL.cpp.o CMakeFiles/run_network.dir/src/pla/fEuler/fEuler_FG.cpp.o CMakeFiles/run_network.dir/src/pla/fEuler/fEuler_RC.cpp.o CMakeFiles/run_network.dir/src/pla/util/fixed_TC.cpp.o CMakeFiles/run_network.dir/src/pla/util/g_Getter.cpp.o CMakeFiles/run_network.dir/src/pla/util/negPopChecker.cpp.o CMakeFiles/run_network.dir/src/pla/util/preleap_TC.cpp.o CMakeFiles/run_network.dir/src/pla/util/rbChecker.cpp.o CMakeFiles/run_network.dir/src/pla/util/sbChecker.cpp.o CMakeFiles/run_network.dir/src/pla/eRungeKutta/base/eRungeKutta_TC_RC_FG_PL.cpp.o CMakeFiles/run_network.dir/src/pla/eRungeKutta/base/eRungeKutta_TC_RC_FG_rbPL.cpp.o CMakeFiles/run_network.dir/src/pla/eRungeKutta/base/eRungeKutta_TC_RC_FG_sbPL.cpp.o CMakeFiles/run_network.dir/src/pla/eRungeKutta/util/aEff_Calculator.cpp.o CMakeFiles/run_network.dir/src/pla/eRungeKutta/util/binomialCorrector_RK.cpp.o CMakeFiles/run_network.dir/src/pla/eRungeKutta/util/butcherTableau.cpp.o CMakeFiles/run_network.dir/src/util/MTrand/mtrand.cpp.o CMakeFiles/run_network.dir/src/util/rand2/rand2.cpp.o -o run_network   -L/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/lib  -Wl,-Bstatic -lmathutils -lmuparser -lsundials_cvode -lsundials_fcvode -lsundials_nvecserial -Wl,-Bdynamic
gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build'
[100%] Built target run_network
gmake[1]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build'
/usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build/CMakeFiles 0

+ popd
~/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.EJ4Dfk
+ umask 022
+ cd /builddir/build/BUILD/bionetgen-2.9.0-build
+ '[' /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT '!=' / ']'
+ rm -rf /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT
++ dirname /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT
+ mkdir -p /builddir/build/BUILD/bionetgen-2.9.0-build
+ mkdir /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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
~/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build ~/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -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 bionetgen-2.9.0
+ pushd bionetgen-BioNetGen-2.9.0/bng2/Network3/build
+ mkdir -vp /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/bin
mkdir: created directory '/builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr'
mkdir: created directory '/builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/bin'
+ install -pm 755 run_network /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/bin/
+ popd
+ mkdir -vp /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/perl5/vendor_perl/BioNetGen
~/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0
mkdir: created directory '/builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share'
mkdir: created directory '/builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/perl5'
mkdir: created directory '/builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/perl5/vendor_perl'
mkdir: created directory '/builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/perl5/vendor_perl/BioNetGen'
+ cp -r bionetgen-BioNetGen-2.9.0/bng2/Perl2 /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/perl5/vendor_perl/BioNetGen/
+ cp -r bionetgen-BioNetGen-2.9.0/bng2/BNG2.pl /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/perl5/vendor_perl/BioNetGen/
+ cp -a bionetgen-BioNetGen-2.9.0/bng2/Models2 /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/perl5/vendor_perl/BioNetGen/
+ rm -f /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/perl5/vendor_perl/BioNetGen/Models2/bin/run_network_aarch64-linux
+ rm -f /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/perl5/vendor_perl/BioNetGen/Models2/run_network
+ /usr/bin/find-debuginfo -j4 --strict-build-id -m -i --build-id-seed 2.9.0-1.fc43 --unique-debug-suffix -2.9.0-1.fc43.aarch64 --unique-debug-src-base bionetgen-2.9.0-1.fc43.aarch64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0
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/bionetgen-2.9.0-1.fc43.aarch64
find-debuginfo: done
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/check-rpaths
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
+ /usr/lib/rpm/brp-remove-la-files
+ /usr/lib/rpm/redhat/brp-python-rpm-in-distinfo
+ env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j4
+ /usr/lib/rpm/redhat/brp-python-hardlink
+ /usr/bin/add-determinism --brp -j4 /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT
Scanned 59 directories and 289 files,
               processed 0 inodes,
               0 modified (0 replaced + 0 rewritten),
               0 unsupported format, 0 errors
Reading /builddir/build/BUILD/bionetgen-2.9.0-build/SPECPARTS/rpm-debuginfo.specpart
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.RzOngG
+ umask 022
+ cd /builddir/build/BUILD/bionetgen-2.9.0-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
~/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Models2 ~/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd bionetgen-2.9.0
+ pushd bionetgen-BioNetGen-2.9.0/bng2/Models2
+ install -pm 755 ../Network3/build/run_network -D ./bin/run_network_aarch64-linux
+ install -pm 755 ../Network3/build/run_network -D ../bin/run_network_aarch64-linux
+ echo 'Running some tests ...'
Running some tests ...
+ ../BNG2.pl CaOscillate_Func.bngl CaOscillate_Sat.bngl catalysis.bngl egfr_net.bngl egfr_net_red.bngl egfr_path.bngl energy_example1.bngl fceri_ji.bngl test_continue.bngl
Possible precedence problem between ! and string eq at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGOutput.pm line 703.
Possible precedence problem between ! and string eq at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/Component.pm line 349.
Possible precedence problem between ! and string eq at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/Molecule.pm line 275.
Possible precedence problem between ! and string eq at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/MoleculeType.pm line 491.
Possible precedence problem between ! and string eq at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/SpeciesGraph.pm line 2180.
Possible precedence problem between ! and string eq at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/SpeciesGraph.pm line 2188.
BioNetGen version 2.9.0
Reading from file CaOscillate_Func.bngl (level 0)
Read 17 parameters.
Read 4 molecule types.
Read 4 species.
Read 4 observable(s).
Read 8 reaction rule(s).
ACTION: generate_network( CaOscillate_Func )
Iteration   0:     4 species      0 rxns  0.00e+00 CPU s
Iteration   1:     4 species      8 rxns  0.00e+00 CPU s
Cumulative CPU time for each rule
Rule   1:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   2:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   3:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   4:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   5:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   6:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   7:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   8:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Total   :     8 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Wrote network in net format to ./CaOscillate_Func.net.
CPU TIME: generate_network 0.00 s.
ACTION: simulate( method=>"cvode" )
Network simulation using cvode
WARNING: writeFile(): Overwriting existing file ./CaOscillate_Func.net.
Wrote network in net format to ./CaOscillate_Func.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./CaOscillate_Func -p cvode -a 1e-12 -r 1e-12 --cdat 1 --fdat 0 -v -g ./CaOscillate_Func.net ./CaOscillate_Func.net 0.1 200
[simulation PID is: 3065]
run_network 3.0
Read 17 parameters from ./CaOscillate_Func.net
Read 4 species from ./CaOscillate_Func.net
Read 4 group(s) from ./CaOscillate_Func.net
Read 4 function(s) from ./CaOscillate_Func.net
Read 8 reaction(s) from ./CaOscillate_Func.net
8 reaction(s) have nonzero rate
Initialization took 0.00 CPU seconds
Propagating with cvode using dense LU
           time       n_steps n_deriv_calls
           0.00             0             0
           0.10           719           851
           0.20           753           889
           0.30           788           924
           0.40           822           962
           0.50           857           997
           0.60           891          1035
           0.70           926          1070
           0.80           960          1108
           0.90           995          1147
           1.00          1029          1181
           1.10          1064          1221
           1.20          1098          1257
           1.30          1133          1299
           1.40          1167          1335
           1.50          1215          1393
           1.60          1263          1449
           1.70          1324          1520
           1.80          1389          1596
           1.90          1460          1680
           2.00          1544          1781
           2.10          1620          1865
           2.20          1697          1946
           2.30          1749          2005
           2.40          1800          2063
           2.50          1854          2128
           2.60          1993          2299
           2.70          2464          2852
           2.80          2562          2973
           2.90          2607          3025
           3.00          2657          3086
           3.10          2718          3156
           3.20          2779          3224
           3.30          2839          3290
           3.40          2900          3355
           3.50          2961          3420
           3.60          3018          3482
           3.70          3071          3550
           3.80          3200          3708
           3.90          3345          3881
           4.00          3456          4003
           4.10          3521          4073
           4.20          3572          4129
           4.30          3624          4186
           4.40          3671          4234
           4.50          3707          4279
           4.60          3753          4333
           4.70          3799          4383
           4.80          3856          4451
           4.90          3913          4526
           5.00          3969          4585
           5.10          4010          4632
           5.20          4047          4675
           5.30          4080          4709
           5.40          4105          4739
           5.50          4129          4764
           5.60          4154          4797
           5.70          4178          4823
           5.80          4201          4848
           5.90          4221          4871
           6.00          4241          4897
           6.10          4261          4918
           6.20          4281          4943
           6.30          4294          4956
           6.40          4307          4970
           6.50          4321          4984
           6.60          4334          4997
           6.70          4347          5014
           6.80          4356          5024
           6.90          4365          5033
           7.00          4374          5042
           7.10          4383          5052
           7.20          4392          5062
           7.30          4401          5071
           7.40          4410          5086
           7.50          4419          5095
           7.60          4427          5103
           7.70          4436          5113
           7.80          4445          5123
           7.90          4457          5142
           8.00          4469          5165
           8.10          4481          5179
           8.20          4491          5192
           8.30          4504          5211
           8.40          4522          5240
           8.50          4543          5268
           8.60          4568          5298
           8.70          4607          5350
           8.80          4663          5420
           8.90          4772          5555
           9.00          5104          5945
           9.10          5399          6270
           9.20          5507          6389
           9.30          5546          6435
           9.40          5561          6451
           9.50          5573          6463
           9.60          5585          6475
           9.70          5597          6492
           9.80          5608          6503
           9.90          5620          6516
          10.00          5632          6528
          10.10          5644          6541
          10.20          5656          6558
          10.30          5668          6570
          10.40          5680          6584
          10.50          5692          6596
          10.60          5703          6609
          10.70          5715          6626
          10.80          5727          6639
          10.90          5739          6653
          11.00          5751          6665
          11.10          5767          6683
          11.20          5783          6704
          11.30          5799          6721
          11.40          5815          6738
          11.50          5831          6754
          11.60          5847          6776
          11.70          5863          6794
          11.80          5879          6812
          11.90          5895          6834
          12.00          5911          6850
          12.10          5927          6868
          12.20          5943          6886
          12.30          5959          6908
          12.40          5975          6926
          12.50          5991          6942
          12.60          6012          6967
          12.70          6034          6994
          12.80          6056          7020
          12.90          6078          7048
          13.00          6100          7072
          13.10          6128          7108
          13.20          6158          7140
          13.30          6188          7177
          13.40          6223          7216
          13.50          6263          7264
          13.60          6311          7322
          13.70          6366          7387
          13.80          6435          7464
          13.90          6507          7550
          14.00          6594          7646
          14.10          6673          7738
          14.20          6750          7820
          14.30          6803          7880
          14.40          6856          7939
          14.50          6911          8005
          14.60          7038          8162
          14.70          7513          8728
          14.80          7634          8876
          14.90          7681          8925
          15.00          7731          8985
          15.10          7793          9054
          15.20          7848          9121
          15.30          7904          9185
          15.40          7960          9246
          15.50          8016          9306
          15.60          8072          9366
          15.70          8129          9434
          15.80          8253          9587
          15.90          8393          9752
          16.00          8510          9880
          16.10          8578          9953
          16.20          8634         10013
          16.30          8690         10073
          16.40          8738         10126
          16.50          8776         10172
          16.60          8820         10221
          16.70          8870         10277
          16.80          8928         10346
          16.90          8988         10415
          17.00          9046         10480
          17.10          9088         10524
          17.20          9126         10568
          17.30          9160         10607
          17.40          9185         10632
          17.50          9211         10659
          17.60          9236         10692
          17.70          9261         10718
          17.80          9284         10747
          17.90          9304         10769
          18.00          9325         10791
          18.10          9346         10817
          18.20          9365         10837
          18.30          9376         10850
          18.40          9385         10859
          18.50          9394         10874
          18.60          9404         10884
          18.70          9413         10894
          18.80          9422         10903
          18.90          9431         10912
          19.00          9440         10921
          19.10          9449         10930
          19.20          9459         10945
          19.30          9468         10954
          19.40          9477         10964
          19.50          9486         10973
          19.60          9495         10984
          19.70          9505         10994
          19.80          9514         11012
          19.90          9523         11021
          20.00          9532         11031
Time course of concentrations written to file ./CaOscillate_Func.cdat.
Time course of groups written to file ./CaOscillate_Func.gdat.
Propagation took 0.00e+00 CPU seconds
Program times:  0.00 CPU s 0.00 clock s 
Updating species concentrations from ./CaOscillate_Func.cdat
CPU TIME: simulate 0.00 s.
Finished processing file CaOscillate_Func.bngl.
CPU TIME: total 0.02 s.
BioNetGen version 2.9.0
Reading from file CaOscillate_Sat.bngl (level 0)
Read 17 parameters.
Read 4 molecule types.
Read 4 species.
Read 4 observable(s).
Read 8 reaction rule(s).
ACTION: generate_network( CaOscillate_Sat )
Iteration   0:     4 species      0 rxns  0.00e+00 CPU s
Iteration   1:     4 species      8 rxns  0.00e+00 CPU s
Cumulative CPU time for each rule
Rule   1:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   2:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   3:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   4:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   5:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   6:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   7:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   8:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Total   :     8 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Wrote network in net format to ./CaOscillate_Sat.net.
CPU TIME: generate_network 0.00 s.
ACTION: simulate( method=>"cvode" )
Network simulation using cvode
WARNING: writeFile(): Overwriting existing file ./CaOscillate_Sat.net.
Wrote network in net format to ./CaOscillate_Sat.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./CaOscillate_Sat -p cvode -a 1e-12 -r 1e-12 --cdat 1 --fdat 0 -v -g ./CaOscillate_Sat.net ./CaOscillate_Sat.net 0.1 200
[simulation PID is: 3067]
run_network 3.0
Read 17 parameters from ./CaOscillate_Sat.net
Read 4 species from ./CaOscillate_Sat.net
Read 4 group(s) from ./CaOscillate_Sat.net
Read 0 function(s) from ./CaOscillate_Sat.net
Read 8 reaction(s) from ./CaOscillate_Sat.net
8 reaction(s) have nonzero rate
Initialization took 0.00 CPU seconds
Propagating with cvode using dense LU
           time       n_steps n_deriv_calls
           0.00             0             0
           0.10           717           850
           0.20           741           879
           0.30           765           904
           0.40           790           930
           0.50           814           960
           0.60           838           985
           0.70           863          1015
           0.80           887          1040
           0.90           911          1066
           1.00           936          1099
           1.10           961          1129
           1.20           993          1171
           1.30          1025          1207
           1.40          1064          1257
           1.50          1108          1309
           1.60          1155          1366
           1.70          1210          1431
           1.80          1284          1514
           1.90          1358          1601
           2.00          1442          1703
           2.10          1521          1789
           2.20          1596          1869
           2.30          1649          1928
           2.40          1701          1987
           2.50          1757          2053
           2.60          1896          2222
           2.70          2360          2768
           2.80          2463          2900
           2.90          2511          2957
           3.00          2560          3015
           3.10          2618          3082
           3.20          2677          3148
           3.30          2735          3213
           3.40          2793          3275
           3.50          2852          3338
           3.60          2910          3400
           3.70          2969          3470
           3.80          3099          3626
           3.90          3243          3798
           4.00          3343          3906
           4.10          3413          3985
           4.20          3479          4055
           4.30          3546          4126
           4.40          3590          4175
           4.50          3634          4222
           4.60          3679          4275
           4.70          3723          4327
           4.80          3778          4394
           4.90          3835          4465
           5.00          3890          4527
           5.10          3930          4571
           5.20          3966          4613
           5.30          3999          4651
           5.40          4023          4676
           5.50          4047          4702
           5.60          4071          4732
           5.70          4095          4759
           5.80          4117          4787
           5.90          4138          4811
           6.00          4158          4833
           6.10          4178          4854
           6.20          4198          4879
           6.30          4211          4892
           6.40          4225          4907
           6.50          4238          4924
           6.60          4252          4938
           6.70          4265          4951
           6.80          4274          4961
           6.90          4283          4970
           7.00          4292          4979
           7.10          4301          4989
           7.20          4310          5003
           7.30          4319          5012
           7.40          4328          5022
           7.50          4337          5031
           7.60          4345          5040
           7.70          4354          5050
           7.80          4363          5064
           7.90          4372          5079
           8.00          4381          5088
           8.10          4390          5099
           8.20          4400          5115
           8.30          4412          5134
           8.40          4431          5179
           8.50          4456          5205
           8.60          4483          5240
           8.70          4519          5286
           8.80          4575          5356
           8.90          4682          5482
           9.00          5014          5875
           9.10          5309          6200
           9.20          5417          6315
           9.30          5456          6361
           9.40          5471          6377
           9.50          5482          6388
           9.60          5493          6404
           9.70          5505          6417
           9.80          5516          6428
           9.90          5527          6440
          10.00          5539          6452
          10.10          5550          6468
          10.20          5561          6479
          10.30          5573          6493
          10.40          5584          6504
          10.50          5595          6517
          10.60          5607          6535
          10.70          5618          6546
          10.80          5630          6560
          10.90          5643          6575
          11.00          5658          6595
          11.10          5673          6610
          11.20          5689          6627
          11.30          5704          6644
          11.40          5719          6665
          11.50          5735          6681
          11.60          5750          6698
          11.70          5765          6715
          11.80          5781          6737
          11.90          5796          6753
          12.00          5811          6769
          12.10          5827          6787
          12.20          5842          6808
          12.30          5857          6825
          12.40          5873          6841
          12.50          5892          6863
          12.60          5913          6889
          12.70          5934          6912
          12.80          5955          6935
          12.90          5975          6961
          13.00          6001          6992
          13.10          6029          7028
          13.20          6057          7058
          13.30          6095          7112
          13.40          6133          7157
          13.50          6171          7203
          13.60          6220          7263
          13.70          6275          7328
          13.80          6345          7407
          13.90          6415          7492
          14.00          6497          7592
          14.10          6572          7678
          14.20          6647          7757
          14.30          6703          7819
          14.40          6753          7876
          14.50          6805          7938
          14.60          6932          8095
          14.70          7381          8618
          14.80          7498          8747
          14.90          7552          8807
          15.00          7599          8867
          15.10          7663          8938
          15.20          7718          9002
          15.30          7774          9065
          15.40          7831          9127
          15.50          7887          9187
          15.60          7944          9244
          15.70          8001          9317
          15.80          8126          9469
          15.90          8281          9649
          16.00          8392          9771
          16.10          8457          9841
          16.20          8507          9898
          16.30          8557          9954
          16.40          8604         10006
          16.50          8640         10047
          16.60          8685         10100
          16.70          8730         10154
          16.80          8785         10215
          16.90          8841         10289
          17.00          8895         10347
          17.10          8935         10395
          17.20          8971         10437
          17.30          9004         10471
          17.40          9028         10499
          17.50          9051         10525
          17.60          9075         10551
          17.70          9098         10580
          17.80          9120         10605
          17.90          9140         10629
          18.00          9160         10655
          18.10          9181         10677
          18.20          9200         10701
          18.30          9210         10716
          18.40          9221         10728
          18.50          9232         10740
          18.60          9243         10751
          18.70          9254         10762
          18.80          9265         10773
          18.90          9276         10788
          19.00          9287         10799
          19.10          9298         10810
          19.20          9309         10821
          19.30          9320         10832
          19.40          9331         10847
          19.50          9342         10858
          19.60          9353         10869
          19.70          9364         10880
          19.80          9375         10891
          19.90          9386         10903
          20.00          9397         10919
Time course of concentrations written to file ./CaOscillate_Sat.cdat.
Time course of groups written to file ./CaOscillate_Sat.gdat.
Propagation took 0.00e+00 CPU seconds
Program times:  0.00 CPU s 0.00 clock s 
Updating species concentrations from ./CaOscillate_Sat.cdat
CPU TIME: simulate 0.04 s.
Finished processing file CaOscillate_Sat.bngl.
CPU TIME: total 0.05 s.
BioNetGen version 2.9.0
Reading from file catalysis.bngl (level 0)
CPU TIME: version 0.00 s.
Warning: Parameter Gf_S_kinase is set to a negative value: -41.5
Warning: Parameter Gf_S_pptase is set to a negative value: -41.5
Warning: Parameter Ea0_S_kinase is set to a negative value: -7.7
Warning: Parameter Ea0_S_pptase is set to a negative value: -7.7
Warning: Parameter Ea0_cat_kinase is set to a negative value: -11.9
Read 17 parameters.
Read 1 compartments.
Read 5 molecule types.
Read 5 species.
Read 4 reaction rule(s).
Read 4 energy patterns(s).
Read 6 observable(s).
ACTION: generate_network( catalysis )
Iteration   0:     5 species      0 rxns  0.00e+00 CPU s
Iteration   1:     7 species      2 rxns  0.00e+00 CPU s
Iteration   2:     9 species      6 rxns  1.00e-02 CPU s
Iteration   3:    10 species     10 rxns  0.00e+00 CPU s
Iteration   4:    10 species     12 rxns  0.00e+00 CPU s
Cumulative CPU time for each rule
Rule   1:     4 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   2:     4 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   3:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   4:     2 reactions 1.00e-02 CPU s 5.00e-03 CPU s/rxn
Total   :    12 reactions 1.00e-02 CPU s 8.33e-04 CPU s/rxn
Wrote network in net format to ./catalysis.net.
CPU TIME: generate_network 0.01 s.
ACTION: simulate( method=>"cvode" )
Network simulation using cvode
WARNING: writeFile(): Overwriting existing file ./catalysis.net.
Wrote network in net format to ./catalysis.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./catalysis -p cvode -a 0.001 -r 1e-07 --cdat 1 --fdat 0 -g ./catalysis.net ./catalysis.net 30 120
[simulation PID is: 3069]
run_network 3.0
Read 30 parameters from ./catalysis.net
@C::$ATP() is a fixed (boundaryCondition) variable
@C::$ADP() is a fixed (boundaryCondition) variable
Read 10 species from ./catalysis.net
Read 6 group(s) from ./catalysis.net
Read 0 function(s) from ./catalysis.net
Read 12 reaction(s) from ./catalysis.net
12 reaction(s) have nonzero rate
Initialization took 0.00 CPU seconds
Propagating with cvode using dense LU
Time course of concentrations written to file ./catalysis.cdat.
Time course of groups written to file ./catalysis.gdat.
Propagation took 0.00e+00 CPU seconds
Program times:  0.00 CPU s 0.00 clock s 
Updating species concentrations from ./catalysis.cdat
CPU TIME: simulate 0.01 s.
Finished processing file catalysis.bngl.
CPU TIME: total 0.03 s.
BioNetGen version 2.9.0
Reading from file egfr_net.bngl (level 0)
Read 48 parameters.
Read 5 molecule types.
Read 6 species.
Read 23 reaction rule(s).
Read 15 observable(s).
ACTION: generate_network( egfr_net )
Iteration   0:     6 species      0 rxns  0.00e+00 CPU s
Iteration   1:     7 species      3 rxns  1.00e-02 CPU s
Iteration   2:     8 species      5 rxns  0.00e+00 CPU s
Iteration   3:    10 species      8 rxns  1.00e-02 CPU s
Iteration   4:    19 species     21 rxns  1.00e-02 CPU s
Iteration   5:    37 species     76 rxns  7.00e-02 CPU s
Iteration   6:    69 species    213 rxns  1.70e-01 CPU s
Iteration   7:   131 species    494 rxns  3.80e-01 CPU s
Iteration   8:   295 species   1260 rxns  1.17e+00 CPU s
Iteration   9:   356 species   3088 rxns  3.07e+00 CPU s
Iteration  10:   356 species   3749 rxns  1.43e+00 CPU s
Cumulative CPU time for each rule
Rule   1:    48 reactions 1.00e-01 CPU s 2.08e-03 CPU s/rxn
Rule   2:   600 reactions 1.51e+00 CPU s 2.52e-03 CPU s/rxn
Rule   3:   144 reactions 1.70e-01 CPU s 1.18e-03 CPU s/rxn
Rule   4:    96 reactions 1.20e-01 CPU s 1.25e-03 CPU s/rxn
Rule   5:   156 reactions 1.60e-01 CPU s 1.03e-03 CPU s/rxn
Rule   6:   104 reactions 1.10e-01 CPU s 1.06e-03 CPU s/rxn
Rule   7:    96 reactions 1.30e-01 CPU s 1.35e-03 CPU s/rxn
Rule   8:   104 reactions 1.30e-01 CPU s 1.25e-03 CPU s/rxn
Rule   9:   312 reactions 4.30e-01 CPU s 1.38e-03 CPU s/rxn
Rule  10:   312 reactions 4.50e-01 CPU s 1.44e-03 CPU s/rxn
Rule  11:   312 reactions 4.90e-01 CPU s 1.57e-03 CPU s/rxn
Rule  12:   208 reactions 2.80e-01 CPU s 1.35e-03 CPU s/rxn
Rule  13:   208 reactions 2.80e-01 CPU s 1.35e-03 CPU s/rxn
Rule  14:   208 reactions 3.80e-01 CPU s 1.83e-03 CPU s/rxn
Rule  15:   208 reactions 3.70e-01 CPU s 1.78e-03 CPU s/rxn
Rule  16:   208 reactions 3.40e-01 CPU s 1.63e-03 CPU s/rxn
Rule  17:   208 reactions 3.60e-01 CPU s 1.73e-03 CPU s/rxn
Rule  18:   208 reactions 3.50e-01 CPU s 1.68e-03 CPU s/rxn
Rule  19:     2 reactions 5.00e-02 CPU s 2.50e-02 CPU s/rxn
Rule  20:     2 reactions 2.00e-02 CPU s 1.00e-02 CPU s/rxn
Rule  21:     1 reactions 3.00e-02 CPU s 3.00e-02 CPU s/rxn
Rule  22:     2 reactions 2.00e-02 CPU s 1.00e-02 CPU s/rxn
Rule  23:     2 reactions 3.00e-02 CPU s 1.50e-02 CPU s/rxn
Total   :  3749 reactions 6.31e+00 CPU s 1.68e-03 CPU s/rxn
Wrote network in net format to ./egfr_net.net.
CPU TIME: generate_network 6.42 s.
ACTION: simulate( method=>"cvode" )
Network simulation using cvode
WARNING: writeFile(): Overwriting existing file ./egfr_net.net.
Wrote network in net format to ./egfr_net.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./egfr_net -p cvode -a 1e-08 -r 1e-08 -b --cdat 1 --fdat 0 -g ./egfr_net.net ./egfr_net.net 0.8 50
[simulation PID is: 3071]
run_network 3.0
Read 48 parameters from ./egfr_net.net
Read 356 species from ./egfr_net.net
Read 15 group(s) from ./egfr_net.net
Read 0 function(s) from ./egfr_net.net
Read 3749 reaction(s) from ./egfr_net.net
3749 reaction(s) have nonzero rate
Initialization took 0.01 CPU seconds
Propagating with cvode using GMRES
Time course of concentrations written to file ./egfr_net.cdat.
Time course of groups written to file ./egfr_net.gdat.
Propagation took 7.00e-02 CPU seconds
Program times:  0.08 CPU s 0.00 clock s 
Updating species concentrations from ./egfr_net.cdat
CPU TIME: simulate 0.18 s.
Finished processing file egfr_net.bngl.
CPU TIME: total 6.64 s.
BioNetGen version 2.9.0
Reading from file egfr_net_red.bngl (level 0)
Read 48 parameters.
Read 7 molecule types.
Read 7 species.
Read 14 observable(s).
Read 26 reaction rule(s).
ACTION: generate_network( egfr_net_red )
Iteration   0:     7 species      0 rxns  0.00e+00 CPU s
Iteration   1:    11 species      4 rxns  1.00e-02 CPU s
Iteration   2:    13 species     10 rxns  0.00e+00 CPU s
Iteration   3:    15 species     14 rxns  1.00e-02 CPU s
Iteration   4:    20 species     21 rxns  1.00e-02 CPU s
Iteration   5:    26 species     39 rxns  2.00e-02 CPU s
Iteration   6:    33 species     62 rxns  3.00e-02 CPU s
Iteration   7:    38 species     90 rxns  3.00e-02 CPU s
Iteration   8:    40 species    115 rxns  2.00e-02 CPU s
Iteration   9:    40 species    123 rxns  1.00e-02 CPU s
Cumulative CPU time for each rule
Rule   1:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   2:     8 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   3:    12 reactions 1.00e-02 CPU s 8.33e-04 CPU s/rxn
Rule   4:     8 reactions 2.00e-02 CPU s 2.50e-03 CPU s/rxn
Rule   5:    12 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   6:     1 reactions 1.00e-02 CPU s 1.00e-02 CPU s/rxn
Rule   7:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   8:     3 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   9:     3 reactions 1.00e-02 CPU s 3.33e-03 CPU s/rxn
Rule  10:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  11:     3 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  12:     6 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  13:     6 reactions 3.00e-02 CPU s 5.00e-03 CPU s/rxn
Rule  14:     6 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  15:     6 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  16:     6 reactions 1.00e-02 CPU s 1.67e-03 CPU s/rxn
Rule  17:     6 reactions 1.00e-02 CPU s 1.67e-03 CPU s/rxn
Rule  18:     6 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  19:     6 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  20:     6 reactions 1.00e-02 CPU s 1.67e-03 CPU s/rxn
Rule  21:     6 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  22:     2 reactions 2.00e-02 CPU s 1.00e-02 CPU s/rxn
Rule  23:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  24:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  25:     2 reactions 1.00e-02 CPU s 5.00e-03 CPU s/rxn
Rule  26:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Total   :   123 reactions 1.40e-01 CPU s 1.14e-03 CPU s/rxn
Wrote network in net format to ./egfr_net_red.net.
CPU TIME: generate_network 0.15 s.
Set concentration of species egf(r) to value 0
CPU TIME: setConcentration 0.00 s.
ACTION: simulate( method=>"cvode" )
Network simulation using cvode
WARNING: writeFile(): Overwriting existing file ./egfr_net_red.net.
Wrote network in net format to ./egfr_net_red.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./egfr_net_red -p cvode -a 1e-08 -r 1e-08 -b -c --cdat 1 --fdat 0 -g ./egfr_net_red.net ./egfr_net_red.net 10000 10
[simulation PID is: 3073]
run_network 3.0
Read 48 parameters from ./egfr_net_red.net
Read 40 species from ./egfr_net_red.net
Read 14 group(s) from ./egfr_net_red.net
Read 3 function(s) from ./egfr_net_red.net
Read 123 reaction(s) from ./egfr_net_red.net
123 reaction(s) have nonzero rate
Initialization took 0.00 CPU seconds
Propagating with cvode using GMRES
Time course of concentrations written to file ./egfr_net_red.cdat.
Time course of groups written to file ./egfr_net_red.gdat.
Propagation took 0.00e+00 CPU seconds
Program times:  0.00 CPU s 0.00 clock s 
Simulation reached steady state by t_end=100000
Updating species concentrations from ./egfr_net_red.cdat
CPU TIME: simulate 0.02 s.
Set concentration of species egf(r) to value egf_tot
CPU TIME: setConcentration 0.00 s.
ACTION: simulate( method=>"cvode" )
Network simulation using cvode
WARNING: writeFile(): Overwriting existing file ./egfr_net_red.net.
Wrote network in net format to ./egfr_net_red.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./egfr_net_red -p cvode -a 1e-08 -r 1e-08 -b --cdat 1 --fdat 0 -g ./egfr_net_red.net ./egfr_net_red.net 1 120
[simulation PID is: 3075]
run_network 3.0
Read 48 parameters from ./egfr_net_red.net
Read 40 species from ./egfr_net_red.net
Read 14 group(s) from ./egfr_net_red.net
Read 3 function(s) from ./egfr_net_red.net
Read 123 reaction(s) from ./egfr_net_red.net
123 reaction(s) have nonzero rate
Initialization took 0.00 CPU seconds
Propagating with cvode using GMRES
Time course of concentrations written to file ./egfr_net_red.cdat.
Time course of groups written to file ./egfr_net_red.gdat.
Propagation took 0.00e+00 CPU seconds
Program times:  0.00 CPU s 0.00 clock s 
Updating species concentrations from ./egfr_net_red.cdat
CPU TIME: simulate 0.03 s.
Finished processing file egfr_net_red.bngl.
CPU TIME: total 0.26 s.
BioNetGen version 2.9.0
Reading from file egfr_path.bngl (level 0)
Read 48 parameters.
Read 18 species.
Read 19 reaction rule(s).
Read 11 observable(s).
ACTION: generate_network( egfr_path )
Iteration   0:    18 species      0 rxns  0.00e+00 CPU s
Iteration   1:    18 species     37 rxns  2.00e-02 CPU s
Cumulative CPU time for each rule
Rule   1:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   2:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   3:     2 reactions 1.00e-02 CPU s 5.00e-03 CPU s/rxn
Rule   4:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   5:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   6:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   7:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   8:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   9:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  10:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  11:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  12:     2 reactions 1.00e-02 CPU s 5.00e-03 CPU s/rxn
Rule  13:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  14:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  15:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  16:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  17:     1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  18:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule  19:     2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Total   :    37 reactions 2.00e-02 CPU s 5.41e-04 CPU s/rxn
Wrote network in net format to ./egfr_path.net.
CPU TIME: generate_network 0.03 s.
Set concentration of species EGF() to value 0
CPU TIME: setConcentration 0.01 s.
ACTION: simulate( method=>"cvode" )
Network simulation using cvode
WARNING: writeFile(): Overwriting existing file ./egfr_path.net.
Wrote network in net format to ./egfr_path.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./egfr_path -p cvode -a 1e-08 -r 1e-08 -c --cdat 1 --fdat 0 -g ./egfr_path.net ./egfr_path.net 10000 10
[simulation PID is: 3077]
run_network 3.0
Read 48 parameters from ./egfr_path.net
Read 18 species from ./egfr_path.net
Read 11 group(s) from ./egfr_path.net
Read 0 function(s) from ./egfr_path.net
Read 37 reaction(s) from ./egfr_path.net
37 reaction(s) have nonzero rate
Initialization took 0.00 CPU seconds
Propagating with cvode using dense LU
Time course of concentrations written to file ./egfr_path.cdat.
Time course of groups written to file ./egfr_path.gdat.
Propagation took 0.00e+00 CPU seconds
Program times:  0.00 CPU s 0.00 clock s 
Simulation reached steady state by t_end=100000
Updating species concentrations from ./egfr_path.cdat
CPU TIME: simulate 0.01 s.
Set concentration of species EGF() to value EGF_tot
CPU TIME: setConcentration 0.00 s.
ACTION: simulate( method=>"cvode" )
Network simulation using cvode
WARNING: writeFile(): Overwriting existing file ./egfr_path.net.
Wrote network in net format to ./egfr_path.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./egfr_path -p cvode -a 1e-08 -r 1e-08 --cdat 1 --fdat 0 -g ./egfr_path.net ./egfr_path.net 1 120
[simulation PID is: 3079]
run_network 3.0
Read 48 parameters from ./egfr_path.net
Read 18 species from ./egfr_path.net
Read 11 group(s) from ./egfr_path.net
Read 0 function(s) from ./egfr_path.net
Read 37 reaction(s) from ./egfr_path.net
37 reaction(s) have nonzero rate
Initialization took 0.00 CPU seconds
Propagating with cvode using dense LU
Time course of concentrations written to file ./egfr_path.cdat.
Time course of groups written to file ./egfr_path.gdat.
Propagation took 0.00e+00 CPU seconds
Program times:  0.00 CPU s 0.00 clock s 
Updating species concentrations from ./egfr_path.cdat
CPU TIME: simulate 0.00 s.
Finished processing file egfr_path.bngl.
CPU TIME: total 0.09 s.
BioNetGen version 2.9.0
Reading from file energy_example1.bngl (level 0)
CPU TIME: version 0.00 s.
Warning: Parameter Gf_SA is set to a negative value: -47.5
Warning: Parameter Gf_SB is set to a negative value: -47.5
Warning: Parameter Gf_SC is set to a negative value: -47.5
Warning: Parameter Gf_SBC is set to a negative value: -5.9
Warning: Parameter Gf_SABC is set to a negative value: -1.8
Warning: Parameter Ea0_SA is set to a negative value: -17.8
Warning: Parameter Ea0_SB is set to a negative value: -17.8
Warning: Parameter Ea0_SC is set to a negative value: -17.8
Read 19 parameters.
Read 1 compartments.
Read 4 molecule types.
Read 4 species.
Read 6 energy patterns(s).
Read 11 observable(s).
Read 3 reaction rule(s).
ACTION: generate_network( energy_example1 )
Iteration   0:     4 species      0 rxns  0.00e+00 CPU s
Iteration   1:     7 species      3 rxns  0.00e+00 CPU s
Iteration   2:    10 species     12 rxns  1.00e-02 CPU s
Iteration   3:    11 species     21 rxns  2.00e-02 CPU s
Iteration   4:    11 species     24 rxns  0.00e+00 CPU s
Cumulative CPU time for each rule
Rule   1:     8 reactions 2.00e-02 CPU s 2.50e-03 CPU s/rxn
Rule   2:     8 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   3:     8 reactions 1.00e-02 CPU s 1.25e-03 CPU s/rxn
Total   :    24 reactions 3.00e-02 CPU s 1.25e-03 CPU s/rxn
Wrote network in net format to ./energy_example1.net.
CPU TIME: generate_network 0.04 s.
Wrote SBML to ./energy_example1_sbml.xml.
CPU TIME: writeSBML 0.01 s.
Finished processing file energy_example1.bngl.
CPU TIME: total 0.07 s.
BioNetGen version 2.9.0
Reading from file fceri_ji.bngl (level 0)
Read 26 parameters.
Read 4 species.
Adding pY as allowed state of component b of molecule Rec
Adding pY as allowed state of component g of molecule Rec
Adding pY as allowed state of component l of molecule Syk
Adding pY as allowed state of component a of molecule Syk
Read 19 reaction rule(s).
Read 10 observable(s).
ACTION: generate_network( fceri_ji )
Iteration   0:     4 species      0 rxns  0.00e+00 CPU s
Iteration   1:     6 species      2 rxns  1.00e-02 CPU s
Iteration   2:     9 species      8 rxns  0.00e+00 CPU s
Iteration   3:    12 species     20 rxns  2.00e-02 CPU s
Iteration   4:    22 species     36 rxns  2.00e-02 CPU s
Iteration   5:    43 species    100 rxns  6.00e-02 CPU s
Iteration   6:    78 species    255 rxns  1.50e-01 CPU s
Iteration   7:   139 species    586 rxns  3.40e-01 CPU s
Iteration   8:   199 species   1190 rxns  6.80e-01 CPU s
Iteration   9:   303 species   1841 rxns  8.30e-01 CPU s
Iteration  10:   354 species   3143 rxns  1.44e+00 CPU s
Iteration  11:   354 species   3680 rxns  6.30e-01 CPU s
Cumulative CPU time for each rule
Rule   1:    48 reactions 1.00e-01 CPU s 2.08e-03 CPU s/rxn
Rule   2:  1152 reactions 1.14e+00 CPU s 9.90e-04 CPU s/rxn
Rule   3:   312 reactions 3.70e-01 CPU s 1.19e-03 CPU s/rxn
Rule   4:    36 reactions 6.00e-02 CPU s 1.67e-03 CPU s/rxn
Rule   5:    24 reactions 7.00e-02 CPU s 2.92e-03 CPU s/rxn
Rule   6:   312 reactions 3.50e-01 CPU s 1.12e-03 CPU s/rxn
Rule   7:    36 reactions 7.00e-02 CPU s 1.94e-03 CPU s/rxn
Rule   8:    24 reactions 6.00e-02 CPU s 2.50e-03 CPU s/rxn
Rule   9:   832 reactions 8.70e-01 CPU s 1.05e-03 CPU s/rxn
Rule  10:    48 reactions 8.00e-02 CPU s 1.67e-03 CPU s/rxn
Rule  11:    48 reactions 9.00e-02 CPU s 1.87e-03 CPU s/rxn
Rule  12:    64 reactions 1.50e-01 CPU s 2.34e-03 CPU s/rxn
Rule  13:    64 reactions 1.10e-01 CPU s 1.72e-03 CPU s/rxn
Rule  14:   156 reactions 1.40e-01 CPU s 8.97e-04 CPU s/rxn
Rule  15:   104 reactions 8.00e-02 CPU s 7.69e-04 CPU s/rxn
Rule  16:   208 reactions 2.10e-01 CPU s 1.01e-03 CPU s/rxn
Rule  17:   208 reactions 1.90e-01 CPU s 9.13e-04 CPU s/rxn
Rule  18:     2 reactions 1.00e-02 CPU s 5.00e-03 CPU s/rxn
Rule  19:     2 reactions 2.00e-02 CPU s 1.00e-02 CPU s/rxn
Total   :  3680 reactions 4.17e+00 CPU s 1.13e-03 CPU s/rxn
Wrote network in net format to ./fceri_ji.net.
CPU TIME: generate_network 4.27 s.
ACTION: simulate( method=>"cvode" )
Network simulation using cvode
WARNING: writeFile(): Overwriting existing file ./fceri_ji.net.
Wrote network in net format to ./fceri_ji.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./fceri_ji -p cvode -a 1e-08 -r 1e-08 --cdat 1 --fdat 0 -g ./fceri_ji.net ./fceri_ji.net 60 10
[simulation PID is: 3081]
run_network 3.0
Read 26 parameters from ./fceri_ji.net
Read 354 species from ./fceri_ji.net
Read 10 group(s) from ./fceri_ji.net
Read 0 function(s) from ./fceri_ji.net
Read 3680 reaction(s) from ./fceri_ji.net
Removed 600 reactions with zero rate
3080 reaction(s) have nonzero rate
Initialization took 0.01 CPU seconds
Propagating with cvode using dense LU
Time course of concentrations written to file ./fceri_ji.cdat.
Time course of groups written to file ./fceri_ji.gdat.
Propagation took 5.20e-01 CPU seconds
Program times:  0.53 CPU s 0.00 clock s 
Updating species concentrations from ./fceri_ji.cdat
CPU TIME: simulate 0.65 s.
Finished processing file fceri_ji.bngl.
CPU TIME: total 4.95 s.
BioNetGen version 2.9.0
Reading from file test_continue.bngl (level 0)
Read 19 parameters.
Read 5 molecule types.
Read 4 species.
Read 6 observable(s).
Read 6 reaction rule(s).
ACTION: generate_network( test_continue )
Iteration   0:     4 species      0 rxns  0.00e+00 CPU s
Iteration   1:     6 species      2 rxns  0.00e+00 CPU s
Iteration   2:     7 species      5 rxns  1.00e-02 CPU s
Iteration   3:     8 species      7 rxns  0.00e+00 CPU s
Iteration   4:    12 species     12 rxns  1.00e-02 CPU s
Iteration   5:    17 species     30 rxns  2.00e-02 CPU s
Iteration   6:    22 species     59 rxns  3.00e-02 CPU s
Iteration   7:    22 species     76 rxns  2.00e-02 CPU s
Cumulative CPU time for each rule
Rule   1:     8 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   2:    20 reactions 3.00e-02 CPU s 1.50e-03 CPU s/rxn
Rule   3:     4 reactions 1.00e-02 CPU s 2.50e-03 CPU s/rxn
Rule   4:     6 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn
Rule   5:    24 reactions 3.00e-02 CPU s 1.25e-03 CPU s/rxn
Rule   6:    14 reactions 2.00e-02 CPU s 1.43e-03 CPU s/rxn
Total   :    76 reactions 9.00e-02 CPU s 1.18e-03 CPU s/rxn
Wrote network in net format to ./test_continue.net.
CPU TIME: generate_network 0.10 s.
Set concentration of species EGF(R) to value EGF_init
CPU TIME: setConcentration 0.00 s.
ACTION: simulate( method=>"cvode" )
Network simulation using cvode
WARNING: writeFile(): Overwriting existing file ./test_continue.net.
Wrote network in net format to ./test_continue.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./test_continue -p cvode -a 1e-08 -r 1e-08 --cdat 1 --fdat 0 -g ./test_continue.net ./test_continue.net 2.5 40
[simulation PID is: 3083]
run_network 3.0
Read 19 parameters from ./test_continue.net
Read 22 species from ./test_continue.net
Read 6 group(s) from ./test_continue.net
Read 0 function(s) from ./test_continue.net
Read 76 reaction(s) from ./test_continue.net
76 reaction(s) have nonzero rate
Initialization took 0.00 CPU seconds
Propagating with cvode using dense LU
Time course of concentrations written to file ./test_continue.cdat.
Time course of groups written to file ./test_continue.gdat.
Propagation took 0.00e+00 CPU seconds
Program times:  0.00 CPU s 0.00 clock s 
Updating species concentrations from ./test_continue.cdat
CPU TIME: simulate 0.00 s.
Set concentration of species EGF(R) to value 10*EGF_init
CPU TIME: setConcentration 0.00 s.
ACTION: simulate( method=>"cvode" )
Network simulation using cvode
WARNING: writeFile(): Overwriting existing file ./test_continue.net.
Wrote network in net format to ./test_continue.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./test_continue -p cvode -a 1e-08 -r 1e-08 --cdat 1 --fdat 0 -x -i 1.000000000000e+02 -g ./test_continue.net ./test_continue.net 2.5 40
[simulation PID is: 3085]
run_network 3.0
Read 20 parameters from ./test_continue.net
Read 22 species from ./test_continue.net
Read 6 group(s) from ./test_continue.net
Read 0 function(s) from ./test_continue.net
Read 76 reaction(s) from ./test_continue.net
76 reaction(s) have nonzero rate
Initialization took 0.00 CPU seconds
Propagating with cvode using dense LU
Time course of concentrations written to file ./test_continue.cdat.
Time course of groups written to file ./test_continue.gdat.
Propagation took 0.00e+00 CPU seconds
Program times:  0.00 CPU s 0.00 clock s 
Updating species concentrations from ./test_continue.cdat
CPU TIME: simulate 0.04 s.
Set concentration of species EGF(R) to value 0.1*EGF_init
CPU TIME: setConcentration 0.00 s.
ACTION: simulate( method=>"cvode" )
Network simulation using cvode
WARNING: writeFile(): Overwriting existing file ./test_continue.net.
Wrote network in net format to ./test_continue.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./test_continue -p cvode -a 1e-08 -r 1e-08 --cdat 1 --fdat 0 -x -i 2.000000000000e+02 -g ./test_continue.net ./test_continue.net 2.5 40
[simulation PID is: 3087]
run_network 3.0
Read 21 parameters from ./test_continue.net
Read 22 species from ./test_continue.net
Read 6 group(s) from ./test_continue.net
Read 0 function(s) from ./test_continue.net
Read 76 reaction(s) from ./test_continue.net
76 reaction(s) have nonzero rate
Initialization took 0.00 CPU seconds
Propagating with cvode using dense LU
Time course of concentrations written to file ./test_continue.cdat.
Time course of groups written to file ./test_continue.gdat.
Propagation took 0.00e+00 CPU seconds
Program times:  0.00 CPU s 0.00 clock s 
Updating species concentrations from ./test_continue.cdat
CPU TIME: simulate 0.00 s.
Reset species concentrations to "DEFAULT" saved values.
CPU TIME: resetConcentrations 0.00 s.
Set concentration of species EGF(R) to value EGF_init
CPU TIME: setConcentration 0.00 s.
ACTION: simulate( method=>"ssa" )
Network simulation using ssa
Wrote network in net format to ./test_continue_ssa.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./test_continue_ssa -p ssa -h 1298514225 --cdat 1 --fdat 0 -g ./test_continue_ssa.net ./test_continue_ssa.net 2.5 40
[simulation PID is: 3089]
run_network 3.0
Read 21 parameters from ./test_continue_ssa.net
Read 22 species from ./test_continue_ssa.net
Read 6 group(s) from ./test_continue_ssa.net
Read 0 function(s) from ./test_continue_ssa.net
Read 76 reaction(s) from ./test_continue_ssa.net
76 reaction(s) have nonzero rate
rxn_rate_update_interval=1
Average number of update rxns is 14.17
Initialization took 0.00 CPU seconds
Stochastic simulation using direct Gillespie algorithm
TOTAL STEPS: 71656           
Time course of concentrations written to file ./test_continue_ssa.cdat.
Time course of groups written to file ./test_continue_ssa.gdat.
Propagation took 1.00e-02 CPU seconds
Program times:  0.01 CPU s 0.00 clock s 
Updating species concentrations from ./test_continue_ssa.cdat
CPU TIME: simulate 0.04 s.
Set concentration of species EGF(R) to value 10*EGF_init
CPU TIME: setConcentration 0.00 s.
ACTION: simulate( method=>"ssa" )
Network simulation using ssa
WARNING: writeFile(): Overwriting existing file ./test_continue_ssa.net.
Wrote network in net format to ./test_continue_ssa.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./test_continue_ssa -p ssa -h 1197289866 --cdat 1 --fdat 0 -x -i 1.000000000000e+02 -g ./test_continue_ssa.net ./test_continue_ssa.net 2.5 40
[simulation PID is: 3091]
run_network 3.0
Read 22 parameters from ./test_continue_ssa.net
Read 22 species from ./test_continue_ssa.net
Read 6 group(s) from ./test_continue_ssa.net
Read 0 function(s) from ./test_continue_ssa.net
Read 76 reaction(s) from ./test_continue_ssa.net
76 reaction(s) have nonzero rate
rxn_rate_update_interval=1
Average number of update rxns is 14.17
Initialization took 0.00 CPU seconds
Stochastic simulation using direct Gillespie algorithm
TOTAL STEPS: 129010          
Time course of concentrations written to file ./test_continue_ssa.cdat.
Time course of groups written to file ./test_continue_ssa.gdat.
Propagation took 1.00e-02 CPU seconds
Program times:  0.01 CPU s 0.00 clock s 
Updating species concentrations from ./test_continue_ssa.cdat
CPU TIME: simulate 0.03 s.
Set concentration of species EGF(R) to value 0.1*EGF_init
CPU TIME: setConcentration 0.00 s.
ACTION: simulate( method=>"ssa" )
Network simulation using ssa
WARNING: writeFile(): Overwriting existing file ./test_continue_ssa.net.
Wrote network in net format to ./test_continue_ssa.net.
Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548.
Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_aarch64-linux -o ./test_continue_ssa -p ssa -h 2078775424 --cdat 1 --fdat 0 -x -i 2.000000000000e+02 -g ./test_continue_ssa.net ./test_continue_ssa.net 2.5 40
[simulation PID is: 3093]
run_network 3.0
Read 23 parameters from ./test_continue_ssa.net
Read 22 species from ./test_continue_ssa.net
Read 6 group(s) from ./test_continue_ssa.net
Read 0 function(s) from ./test_continue_ssa.net
Read 76 reaction(s) from ./test_continue_ssa.net
76 reaction(s) have nonzero rate
rxn_rate_update_interval=1
Average number of update rxns is 14.17
Initialization took 0.00 CPU seconds
Stochastic simulation using direct Gillespie algorithm
TOTAL STEPS: 106809          
Time course of concentrations written to file ./test_continue_ssa.cdat.
Time course of groups written to file ./test_continue_ssa.gdat.
Propagation took 1.00e-02 CPU seconds
Program times:  0.01 CPU s 1.00 clock s 
Updating species concentrations from ./test_continue_ssa.cdat
CPU TIME: simulate 0.03 s.
Finished processing file test_continue.bngl.
CPU TIME: total 0.26 s.
Tests finished.
+ echo 'Tests finished.'
+ RPM_EC=0
++ jobs -p
+ exit 0
Processing files: bionetgen-2.9.0-1.fc43.aarch64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.zrFSEI
+ umask 022
+ cd /builddir/build/BUILD/bionetgen-2.9.0-build
+ cd bionetgen-2.9.0
+ DOCDIR=/builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/doc/bionetgen
+ export LC_ALL=C.UTF-8
+ LC_ALL=C.UTF-8
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/doc/bionetgen
+ cp -pr /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/README.md /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/doc/bionetgen
+ cp -pr /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/CREDITS.txt /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/doc/bionetgen
+ cp -pr /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/CHANGES.txt /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/doc/bionetgen
+ cp -pr /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/VERSION /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/doc/bionetgen
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.YwXfIs
+ umask 022
+ cd /builddir/build/BUILD/bionetgen-2.9.0-build
+ cd bionetgen-2.9.0
+ LICENSEDIR=/builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/licenses/bionetgen
+ export LC_ALL=C.UTF-8
+ LC_ALL=C.UTF-8
+ export LICENSEDIR
+ /usr/bin/mkdir -p /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/licenses/bionetgen
+ cp -pr /builddir/build/BUILD/bionetgen-2.9.0-build/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/LICENSE /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT/usr/share/licenses/bionetgen
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: bionetgen = 2.9.0-1.fc43 bionetgen(aarch-64) = 2.9.0-1.fc43
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_ABI_DT_RELR)(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.17)(64bit) libm.so.6(GLIBC_2.29)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.8)(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_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(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) rtld(GNU_HASH)
Processing files: bionetgen-perl-2.9.0-1.fc43.noarch
Provides: bionetgen-perl = 2.9.0-1.fc43 bundled(XML-TreePP) = 0.41 perl(Viz)
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: /usr/bin/perl perl(Carp) perl(Class::Struct) perl(Config) perl(Cwd) perl(Data::Dumper) perl(Exporter) perl(File::Basename) perl(File::Path) perl(File::Spec) perl(File::Spec::Win32) perl(FindBin) perl(Getopt::Long) perl(IO::Handle) perl(IO::Select) perl(IPC::Open3) perl(List::Util) perl(Math::Trig) perl(POSIX) perl(Scalar::Util) perl(Storable) perl(Symbol) perl(constant) perl(lib) perl(strict) perl(vars) perl(warnings) perl-libs
Processing files: bionetgen-debugsource-2.9.0-1.fc43.aarch64
Provides: bionetgen-debugsource = 2.9.0-1.fc43 bionetgen-debugsource(aarch-64) = 2.9.0-1.fc43
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: bionetgen-debuginfo-2.9.0-1.fc43.aarch64
Provides: bionetgen-debuginfo = 2.9.0-1.fc43 bionetgen-debuginfo(aarch-64) = 2.9.0-1.fc43 debuginfo(build-id) = 835a6b41a9cfba51db3df09dc4dd34c2393c27c0
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: bionetgen-debugsource(aarch-64) = 2.9.0-1.fc43
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILD/bionetgen-2.9.0-build/BUILDROOT
Wrote: /builddir/build/RPMS/bionetgen-2.9.0-1.fc43.aarch64.rpm
Wrote: /builddir/build/RPMS/bionetgen-debugsource-2.9.0-1.fc43.aarch64.rpm
Wrote: /builddir/build/RPMS/bionetgen-perl-2.9.0-1.fc43.noarch.rpm
Wrote: /builddir/build/RPMS/bionetgen-debuginfo-2.9.0-1.fc43.aarch64.rpm
Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.oEEGZ9
+ umask 022
+ cd /builddir/build/BUILD/bionetgen-2.9.0-build
+ test -d /builddir/build/BUILD/bionetgen-2.9.0-build
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/bionetgen-2.9.0-build
+ rm -rf /builddir/build/BUILD/bionetgen-2.9.0-build
+ RPM_EC=0
++ jobs -p
+ exit 0
Finish: rpmbuild bionetgen-2.9.0-1.fc43.src.rpm
Finish: build phase for bionetgen-2.9.0-1.fc43.src.rpm
INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-rawhide-aarch64-1746538555.779123/root/var/log/dnf5.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/bionetgen-2.9.0-1.fc43.src.rpm) Config(child) 1 minutes 1 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": "bionetgen-debuginfo",
            "epoch": null,
            "version": "2.9.0",
            "release": "1.fc43",
            "arch": "aarch64"
        },
        {
            "name": "bionetgen-debugsource",
            "epoch": null,
            "version": "2.9.0",
            "release": "1.fc43",
            "arch": "aarch64"
        },
        {
            "name": "bionetgen",
            "epoch": null,
            "version": "2.9.0",
            "release": "1.fc43",
            "arch": "aarch64"
        },
        {
            "name": "bionetgen",
            "epoch": null,
            "version": "2.9.0",
            "release": "1.fc43",
            "arch": "src"
        },
        {
            "name": "bionetgen-perl",
            "epoch": null,
            "version": "2.9.0",
            "release": "1.fc43",
            "arch": "noarch"
        }
    ]
}
RPMResults finished