Warning: Permanently added '54.162.220.62' (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/8598702-fedora-rawhide-x86_64 --chroot fedora-rawhide-x86_64


Version: 1.2
PID: 9003
Logging PID: 9004
Task:
{'allow_user_ssh': False,
 'appstream': False,
 'background': True,
 'build_id': 8598702,
 'buildroot_pkgs': [],
 'chroot': 'fedora-rawhide-x86_64',
 'enable_net': False,
 'fedora_review': False,
 'git_hash': '8502f10bd792852cc5cca67b7c1e5ee04addc0b0',
 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/psimovec/openblas-0.3.23/mmseq',
 'isolation': 'default',
 'memory_reqs': 2048,
 'package_name': 'mmseq',
 'package_version': '1.0.11-23',
 'project_dirname': 'openblas-0.3.23',
 'project_name': 'openblas-0.3.23',
 'project_owner': 'psimovec',
 'repo_priority': None,
 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/psimovec/openblas-0.3.23/fedora-rawhide-x86_64/',
            'id': 'copr_base',
            'name': 'Copr repository',
            'priority': None},
           {'baseurl': 'http://kojipkgs.fedoraproject.org/repos/rawhide/latest/$basearch/',
            'id': 'http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch',
            'name': 'Additional repo http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch'}],
 'sandbox': 'psimovec/openblas-0.3.23--https://src.fedoraproject.org/user/orion',
 'source_json': {},
 'source_type': None,
 'ssh_public_keys': None,
 'storage': None,
 'submitter': 'https://src.fedoraproject.org/user/orion',
 'tags': [],
 'task_id': '8598702-fedora-rawhide-x86_64',
 'timeout': 18000,
 'uses_devel_repo': False,
 'with_opts': [],
 'without_opts': []}

Running: git clone https://copr-dist-git.fedorainfracloud.org/git/psimovec/openblas-0.3.23/mmseq /var/lib/copr-rpmbuild/workspace/workdir-rk4h6df7/mmseq --depth 500 --no-single-branch --recursive

cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/psimovec/openblas-0.3.23/mmseq', '/var/lib/copr-rpmbuild/workspace/workdir-rk4h6df7/mmseq', '--depth', '500', '--no-single-branch', '--recursive']
cwd: .
rc: 0
stdout: 
stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-rk4h6df7/mmseq'...

Running: git checkout 8502f10bd792852cc5cca67b7c1e5ee04addc0b0 --

cmd: ['git', 'checkout', '8502f10bd792852cc5cca67b7c1e5ee04addc0b0', '--']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-rk4h6df7/mmseq
rc: 0
stdout: 
stderr: Note: switching to '8502f10bd792852cc5cca67b7c1e5ee04addc0b0'.

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 8502f10 automatic import of mmseq

Running: dist-git-client sources

cmd: ['dist-git-client', 'sources']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-rk4h6df7/mmseq
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 1.0.11.zip
INFO: Reading stdout from command: curl --help all
INFO: Calling: curl -H Pragma: -o 1.0.11.zip --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/psimovec/openblas-0.3.23/mmseq/1.0.11.zip/md5/c727916d339d7a2111523800b621ce2b/1.0.11.zip
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100 2781k  100 2781k    0     0   180M      0 --:--:-- --:--:-- --:--:--  194M
INFO: Reading stdout from command: md5sum 1.0.11.zip

/usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated
Running (timeout=18000): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-rk4h6df7/mmseq/mmseq.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-rk4h6df7/mmseq --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1738535035.557167 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
INFO: mock.py version 6.0 starting (python version = 3.13.0, NVR = mock-6.0-1.fc41), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-rk4h6df7/mmseq/mmseq.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-rk4h6df7/mmseq --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1738535035.557167 -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-rk4h6df7/mmseq/mmseq.spec)  Config(fedora-rawhide-x86_64)
Start: clean chroot
Finish: clean chroot
Mock Version: 6.0
INFO: Mock Version: 6.0
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-x86_64-bootstrap-1738535035.557167/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-985b178d-f03f-4008-bcee-88e7e0c50d4d
INFO: Checking that 3b26c95bbe87cc88f475ce9c0ba4b394bf23541b10bebe9a634c9c8e61f73b10 image matches host's architecture
INFO: Copy content of container 3b26c95bbe87cc88f475ce9c0ba4b394bf23541b10bebe9a634c9c8e61f73b10 to /var/lib/mock/fedora-rawhide-x86_64-bootstrap-1738535035.557167/root
INFO: mounting 3b26c95bbe87cc88f475ce9c0ba4b394bf23541b10bebe9a634c9c8e61f73b10 with podman image mount
INFO: image 3b26c95bbe87cc88f475ce9c0ba4b394bf23541b10bebe9a634c9c8e61f73b10 as /var/lib/containers/storage/overlay/d3212d8beae72a97d426f4f4cbc9926037985c9d492b381ad2608549e5b9deb3/merged
INFO: umounting image 3b26c95bbe87cc88f475ce9c0ba4b394bf23541b10bebe9a634c9c8e61f73b10 (/var/lib/containers/storage/overlay/d3212d8beae72a97d426f4f4cbc9926037985c9d492b381ad2608549e5b9deb3/merged) with podman image umount
INFO: Removing image mock-bootstrap-985b178d-f03f-4008-bcee-88e7e0c50d4d
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-x86_64-1738535035.557167/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-4.20.0-1.fc42.x86_64
  rpm-sequoia-1.7.0-3.fc42.x86_64
  dnf5-5.2.8.1-2.fc42.x86_64
  dnf5-plugins-5.2.8.1-2.fc42.x86_64
Start: installing minimal buildroot with dnf5
Updating and loading repositories:
 fedora                                 100% |  39.2 MiB/s |  21.5 MiB |  00m01s
 Copr repository                        100% |  58.1 MiB/s |   3.4 MiB |  00m00s
 Additional repo http_kojipkgs_fedorapr 100% | 129.4 MiB/s |  14.2 MiB |  00m00s
Repositories loaded.
Package                            Arch   Version                    Repository                                                         Size
Installing group/module packages:
 bash                              x86_64 5.2.37-1.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   8.2 MiB
 bzip2                             x86_64 1.0.8-20.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  99.3 KiB
 coreutils                         x86_64 9.6-1.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   5.5 MiB
 cpio                              x86_64 2.15-2.fc41                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.1 MiB
 diffutils                         x86_64 3.10-9.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.6 MiB
 fedora-release-common             noarch 42-0.16                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  19.8 KiB
 findutils                         x86_64 1:4.10.0-5.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.9 MiB
 gawk                              x86_64 5.3.1-1.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.7 MiB
 glibc-minimal-langpack            x86_64 2.40.9000-35.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   0.0   B
 grep                              x86_64 3.11-10.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.0 MiB
 gzip                              x86_64 1.13-3.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 392.9 KiB
 info                              x86_64 7.2-3.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 357.9 KiB
 patch                             x86_64 2.7.6-26.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 258.7 KiB
 redhat-rpm-config                 noarch 342-1.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 186.8 KiB
 rpm-build                         x86_64 4.20.0-8.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 165.2 KiB
 sed                               x86_64 4.9-4.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 857.3 KiB
 shadow-utils                      x86_64 2:4.17.0-4.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   4.0 MiB
 tar                               x86_64 2:1.35-5.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.0 MiB
 unzip                             x86_64 6.0-66.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 390.3 KiB
 util-linux                        x86_64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.4 MiB
 which                             x86_64 2.22-2.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  83.1 KiB
 xz                                x86_64 1:5.6.3-3.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.2 MiB
Installing dependencies:
 add-determinism                   x86_64 0.5.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.5 MiB
 alternatives                      x86_64 1.31-3.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  66.2 KiB
 ansible-srpm-macros               noarch 1-17.1.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  35.7 KiB
 audit-libs                        x86_64 4.0.3-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 351.3 KiB
 authselect                        x86_64 1.5.0-9.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 156.0 KiB
 authselect-libs                   x86_64 1.5.0-9.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 820.0 KiB
 basesystem                        noarch 11-22.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   0.0   B
 binutils                          x86_64 2.43.50-12.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  25.8 MiB
 build-reproducibility-srpm-macros noarch 0.5.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 735.0   B
 bzip2-libs                        x86_64 1.0.8-20.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  84.6 KiB
 ca-certificates                   noarch 2024.2.69_v8.0.401-5.fc42  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.6 MiB
 coreutils-common                  x86_64 9.6-1.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  11.1 MiB
 cracklib                          x86_64 2.9.11-7.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 242.4 KiB
 crypto-policies                   noarch 20250124-1.git4d262e7.fc42 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 137.4 KiB
 curl                              x86_64 8.11.1-3.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 454.7 KiB
 cyrus-sasl-lib                    x86_64 2.1.28-30.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.3 MiB
 dbus                              x86_64 1:1.16.0-3.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   0.0   B
 dbus-broker                       x86_64 36-5.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 395.1 KiB
 dbus-common                       noarch 1:1.16.0-3.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  11.2 KiB
 debugedit                         x86_64 5.1-4.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 200.4 KiB
 dwz                               x86_64 0.15-9.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 291.0 KiB
 ed                                x86_64 1.21-2.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 146.5 KiB
 efi-srpm-macros                   noarch 6-2.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  40.1 KiB
 elfutils                          x86_64 0.192-8.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.7 MiB
 elfutils-debuginfod-client        x86_64 0.192-8.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  83.9 KiB
 elfutils-default-yama-scope       noarch 0.192-8.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.8 KiB
 elfutils-libelf                   x86_64 0.192-8.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.2 MiB
 elfutils-libs                     x86_64 0.192-8.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 675.0 KiB
 expat                             x86_64 2.6.4-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 292.8 KiB
 fedora-gpg-keys                   noarch 42-0.4                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 128.2 KiB
 fedora-release                    noarch 42-0.16                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   0.0   B
 fedora-release-identity-basic     noarch 42-0.16                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 719.0   B
 fedora-repos                      noarch 42-0.4                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   4.9 KiB
 fedora-repos-rawhide              noarch 42-0.4                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.2 KiB
 file                              x86_64 5.45-9.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 103.4 KiB
 file-libs                         x86_64 5.45-9.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   9.9 MiB
 filesystem                        x86_64 3.18-36.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 112.0   B
 filesystem-srpm-macros            noarch 3.18-36.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  38.2 KiB
 fonts-srpm-macros                 noarch 1:2.0.5-21.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  55.8 KiB
 forge-srpm-macros                 noarch 0.4.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  38.9 KiB
 fpc-srpm-macros                   noarch 1.3-14.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 144.0   B
 gdb-minimal                       x86_64 15.2-7.fc42                copr_base                                                      13.0 MiB
 gdbm                              x86_64 1:1.23-9.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 460.3 KiB
 gdbm-libs                         x86_64 1:1.23-9.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 129.9 KiB
 ghc-srpm-macros                   noarch 1.9.2-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 779.0   B
 glibc                             x86_64 2.40.9000-35.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   6.6 MiB
 glibc-common                      x86_64 2.40.9000-35.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.0 MiB
 glibc-gconv-extra                 x86_64 2.40.9000-35.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   7.2 MiB
 gmp                               x86_64 1:6.3.0-2.fc41             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 811.4 KiB
 gnat-srpm-macros                  noarch 6-7.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.0 KiB
 go-srpm-macros                    noarch 3.6.0-6.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  60.8 KiB
 jansson                           x86_64 2.14-2.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  93.1 KiB
 json-c                            x86_64 0.18-2.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  86.7 KiB
 kernel-srpm-macros                noarch 1.0-25.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.9 KiB
 keyutils-libs                     x86_64 1.6.3-5.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  58.3 KiB
 krb5-libs                         x86_64 1.21.3-5.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.3 MiB
 libacl                            x86_64 2.3.2-3.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  38.3 KiB
 libarchive                        x86_64 3.7.7-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 938.6 KiB
 libattr                           x86_64 2.5.2-5.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  27.1 KiB
 libblkid                          x86_64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 262.4 KiB
 libbrotli                         x86_64 1.1.0-6.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 841.3 KiB
 libcap                            x86_64 2.73-2.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 207.1 KiB
 libcap-ng                         x86_64 0.8.5-4.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  72.9 KiB
 libcom_err                        x86_64 1.47.2-3.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  67.1 KiB
 libcurl                           x86_64 8.11.1-3.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 842.0 KiB
 libeconf                          x86_64 0.7.5-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  68.5 KiB
 libevent                          x86_64 2.1.12-15.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 903.1 KiB
 libfdisk                          x86_64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 372.3 KiB
 libffi                            x86_64 3.4.6-5.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  82.3 KiB
 libgcc                            x86_64 15.0.1-0.6.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 266.6 KiB
 libgomp                           x86_64 15.0.1-0.6.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 535.7 KiB
 libidn2                           x86_64 2.3.7-3.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 329.0 KiB
 libmount                          x86_64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 356.2 KiB
 libnghttp2                        x86_64 1.64.0-3.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 170.4 KiB
 libnsl2                           x86_64 2.0.1-3.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  57.9 KiB
 libpkgconf                        x86_64 2.3.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  78.1 KiB
 libpsl                            x86_64 0.21.5-5.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  76.4 KiB
 libpwquality                      x86_64 1.4.5-12.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 409.3 KiB
 libseccomp                        x86_64 2.5.5-2.fc41               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 173.3 KiB
 libselinux                        x86_64 3.8-1.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 193.1 KiB
 libsemanage                       x86_64 3.8-1.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 308.4 KiB
 libsepol                          x86_64 3.8-1.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 826.0 KiB
 libsmartcols                      x86_64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 180.4 KiB
 libssh                            x86_64 0.11.1-4.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 565.5 KiB
 libssh-config                     noarch 0.11.1-4.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 277.0   B
 libstdc++                         x86_64 15.0.1-0.6.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.8 MiB
 libtasn1                          x86_64 4.19.0-11.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 175.6 KiB
 libtirpc                          x86_64 1.3.6-1.rc3.fc42.2         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 199.0 KiB
 libtool-ltdl                      x86_64 2.5.4-4.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  70.1 KiB
 libunistring                      x86_64 1.1-9.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.7 MiB
 libuuid                           x86_64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  37.3 KiB
 libverto                          x86_64 0.3.2-10.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  25.4 KiB
 libxcrypt                         x86_64 4.4.38-4.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 268.0 KiB
 libxml2                           x86_64 2.12.9-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.7 MiB
 libzstd                           x86_64 1.5.6-3.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 795.8 KiB
 lua-libs                          x86_64 5.4.7-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 280.9 KiB
 lua-srpm-macros                   noarch 1-15.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.3 KiB
 lz4-libs                          x86_64 1.10.0-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 157.4 KiB
 mpfr                              x86_64 4.2.1-6.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 831.9 KiB
 ncurses-base                      noarch 6.5-5.20250125.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 326.8 KiB
 ncurses-libs                      x86_64 6.5-5.20250125.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 946.3 KiB
 ocaml-srpm-macros                 noarch 10-4.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.9 KiB
 openblas-srpm-macros              noarch 2-19.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 112.0   B
 openldap                          x86_64 2.6.9-3.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 655.1 KiB
 openssl-libs                      x86_64 1:3.2.2-14.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   7.8 MiB
 p11-kit                           x86_64 0.25.5-5.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.2 MiB
 p11-kit-trust                     x86_64 0.25.5-5.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 395.5 KiB
 package-notes-srpm-macros         noarch 0.5-13.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.6 KiB
 pam                               x86_64 1.7.0-4.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.6 MiB
 pam-libs                          x86_64 1.7.0-4.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 126.7 KiB
 pcre2                             x86_64 10.44-1.fc42.2             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 649.3 KiB
 pcre2-syntax                      noarch 10.44-1.fc42.2             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 251.6 KiB
 perl-srpm-macros                  noarch 1-57.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 861.0   B
 pkgconf                           x86_64 2.3.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  88.5 KiB
 pkgconf-m4                        noarch 2.3.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  14.4 KiB
 pkgconf-pkg-config                x86_64 2.3.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 989.0   B
 popt                              x86_64 1.19-8.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 132.8 KiB
 publicsuffix-list-dafsa           noarch 20250116-1.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  68.5 KiB
 pyproject-srpm-macros             noarch 1.16.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.9 KiB
 python-srpm-macros                noarch 3.13-4.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  51.0 KiB
 qt5-srpm-macros                   noarch 5.15.15-1.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 500.0   B
 qt6-srpm-macros                   noarch 6.8.1-5.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 456.0   B
 readline                          x86_64 8.2-12.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 485.0 KiB
 rpm                               x86_64 4.20.0-8.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.0 MiB
 rpm-build-libs                    x86_64 4.20.0-8.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 202.6 KiB
 rpm-libs                          x86_64 4.20.0-8.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 721.8 KiB
 rpm-sequoia                       x86_64 1.7.0-4.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.4 MiB
 rust-srpm-macros                  noarch 26.3-4.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   4.8 KiB
 setup                             noarch 2.15.0-10.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 720.7 KiB
 sqlite-libs                       x86_64 3.47.2-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.5 MiB
 systemd                           x86_64 257.2-17.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  17.4 MiB
 systemd-libs                      x86_64 257.2-17.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.2 MiB
 systemd-pam                       x86_64 257.2-17.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.1 MiB
 systemd-rpm-macros                noarch 257.2-17.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  10.7 KiB
 util-linux-core                   x86_64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.4 MiB
 xxhash-libs                       x86_64 0.8.3-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  90.2 KiB
 xz-libs                           x86_64 1:5.6.3-3.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 218.3 KiB
 zig-srpm-macros                   noarch 1-4.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.1 KiB
 zip                               x86_64 3.0-43.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 698.5 KiB
 zlib-ng-compat                    x86_64 2.2.3-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 137.6 KiB
 zstd                              x86_64 1.5.6-3.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.7 MiB
Installing groups:
 Buildsystem building group                                                                                                                 

Transaction Summary:
 Installing:       163 packages

Total size of inbound packages is 59 MiB. Need to download 59 MiB.
After this operation, 197 MiB extra will be used (install 197 MiB, remove 0 B).
[  1/163] bzip2-0:1.0.8-20.fc42.x86_64  100% |   2.3 MiB/s |  52.1 KiB |  00m00s
[  2/163] cpio-0:2.15-2.fc41.x86_64     100% |  25.3 MiB/s | 285.2 KiB |  00m00s
[  3/163] coreutils-0:9.6-1.fc42.x86_64 100% |  30.7 MiB/s |   1.1 MiB |  00m00s
[  4/163] bash-0:5.2.37-1.fc42.x86_64   100% |  45.8 MiB/s |   1.8 MiB |  00m00s
[  5/163] fedora-release-common-0:42-0. 100% |   4.7 MiB/s |  24.3 KiB |  00m00s
[  6/163] diffutils-0:3.10-9.fc42.x86_6 100% |  43.0 MiB/s | 396.4 KiB |  00m00s
[  7/163] findutils-1:4.10.0-5.fc42.x86 100% |  66.2 MiB/s | 542.7 KiB |  00m00s
[  8/163] glibc-minimal-langpack-0:2.40 100% |  20.8 MiB/s | 127.9 KiB |  00m00s
[  9/163] gawk-0:5.3.1-1.fc42.x86_64    100% |  97.0 MiB/s |   1.1 MiB |  00m00s
[ 10/163] grep-0:3.11-10.fc42.x86_64    100% |  40.5 MiB/s | 290.1 KiB |  00m00s
[ 11/163] gzip-0:1.13-3.fc42.x86_64     100% |  32.1 MiB/s | 164.2 KiB |  00m00s
[ 12/163] info-0:7.2-3.fc42.x86_64      100% |  29.9 MiB/s | 183.8 KiB |  00m00s
[ 13/163] patch-0:2.7.6-26.fc42.x86_64  100% |  25.1 MiB/s | 128.4 KiB |  00m00s
[ 14/163] redhat-rpm-config-0:342-1.fc4 100% |  14.6 MiB/s |  74.9 KiB |  00m00s
[ 15/163] rpm-build-0:4.20.0-8.fc42.x86 100% |  14.5 MiB/s |  74.5 KiB |  00m00s
[ 16/163] sed-0:4.9-4.fc42.x86_64       100% |  60.3 MiB/s | 308.8 KiB |  00m00s
[ 17/163] shadow-utils-2:4.17.0-4.fc42. 100% | 125.0 MiB/s |   1.3 MiB |  00m00s
[ 18/163] unzip-0:6.0-66.fc42.x86_64    100% |  30.0 MiB/s | 184.6 KiB |  00m00s
[ 19/163] tar-2:1.35-5.fc42.x86_64      100% |  92.6 MiB/s | 853.9 KiB |  00m00s
[ 20/163] which-0:2.22-2.fc42.x86_64    100% |   8.1 MiB/s |  41.5 KiB |  00m00s
[ 21/163] util-linux-0:2.40.4-2.fc42.x8 100% | 111.2 MiB/s |   1.1 MiB |  00m00s
[ 22/163] xz-1:5.6.3-3.fc42.x86_64      100% |  56.3 MiB/s | 461.3 KiB |  00m00s
[ 23/163] audit-libs-0:4.0.3-2.fc42.x86 100% |  24.5 MiB/s | 125.3 KiB |  00m00s
[ 24/163] xz-libs-1:5.6.3-3.fc42.x86_64 100% |  18.5 MiB/s | 113.4 KiB |  00m00s
[ 25/163] glibc-0:2.40.9000-35.fc42.x86 100% | 151.1 MiB/s |   2.3 MiB |  00m00s
[ 26/163] authselect-libs-0:1.5.0-9.fc4 100% |  39.6 MiB/s | 202.9 KiB |  00m00s
[ 27/163] libblkid-0:2.40.4-2.fc42.x86_ 100% |  24.7 MiB/s | 126.2 KiB |  00m00s
[ 28/163] filesystem-0:3.18-36.fc42.x86 100% | 119.5 MiB/s |   1.3 MiB |  00m00s
[ 29/163] libcap-ng-0:0.8.5-4.fc42.x86_ 100% |   5.2 MiB/s |  32.2 KiB |  00m00s
[ 30/163] libfdisk-0:2.40.4-2.fc42.x86_ 100% |  26.4 MiB/s | 162.3 KiB |  00m00s
[ 31/163] libselinux-0:3.8-1.fc42.x86_6 100% |  19.0 MiB/s |  97.1 KiB |  00m00s
[ 32/163] libmount-0:2.40.4-2.fc42.x86_ 100% |  31.0 MiB/s | 158.7 KiB |  00m00s
[ 33/163] libuuid-0:2.40.4-2.fc42.x86_6 100% |   7.1 MiB/s |  29.0 KiB |  00m00s
[ 34/163] libsmartcols-0:2.40.4-2.fc42. 100% |  16.6 MiB/s |  84.9 KiB |  00m00s
[ 35/163] ncurses-libs-0:6.5-5.20250125 100% |  46.7 MiB/s | 335.0 KiB |  00m00s
[ 36/163] pam-libs-0:1.7.0-4.fc42.x86_6 100% |  11.4 MiB/s |  58.3 KiB |  00m00s
[ 37/163] pam-0:1.7.0-4.fc42.x86_64     100% |  84.5 MiB/s | 519.3 KiB |  00m00s
[ 38/163] readline-0:8.2-12.fc42.x86_64 100% |  42.0 MiB/s | 215.2 KiB |  00m00s
[ 39/163] util-linux-core-0:2.40.4-2.fc 100% |  72.2 MiB/s | 517.3 KiB |  00m00s
[ 40/163] systemd-libs-0:257.2-17.fc42. 100% |  88.9 MiB/s | 819.3 KiB |  00m00s
[ 41/163] zlib-ng-compat-0:2.2.3-2.fc42 100% |  12.8 MiB/s |  78.9 KiB |  00m00s
[ 42/163] bzip2-libs-0:1.0.8-20.fc42.x8 100% |  10.6 MiB/s |  43.6 KiB |  00m00s
[ 43/163] libacl-0:2.3.2-3.fc42.x86_64  100% |   5.6 MiB/s |  23.0 KiB |  00m00s
[ 44/163] libcap-0:2.73-2.fc42.x86_64   100% |  16.5 MiB/s |  84.3 KiB |  00m00s
[ 45/163] libgcc-0:15.0.1-0.6.fc42.x86_ 100% |  27.7 MiB/s | 113.4 KiB |  00m00s
[ 46/163] libeconf-0:0.7.5-2.fc42.x86_6 100% |   8.6 MiB/s |  35.1 KiB |  00m00s
[ 47/163] libsemanage-0:3.8-1.fc42.x86_ 100% |  24.1 MiB/s | 123.6 KiB |  00m00s
[ 48/163] libxcrypt-0:4.4.38-4.fc42.x86 100% |  23.3 MiB/s | 119.2 KiB |  00m00s
[ 49/163] setup-0:2.15.0-10.fc42.noarch 100% |  29.3 MiB/s | 149.8 KiB |  00m00s
[ 50/163] debugedit-0:5.1-4.fc42.x86_64 100% |  15.4 MiB/s |  78.9 KiB |  00m00s
[ 51/163] elfutils-0:0.192-8.fc42.x86_6 100% |  66.6 MiB/s | 545.8 KiB |  00m00s
[ 52/163] elfutils-libelf-0:0.192-8.fc4 100% |  22.6 MiB/s | 208.1 KiB |  00m00s
[ 53/163] file-0:5.45-9.fc42.x86_64     100% |   5.9 MiB/s |  48.6 KiB |  00m00s
[ 54/163] pkgconf-pkg-config-0:2.3.0-2. 100% |   1.9 MiB/s |   9.9 KiB |  00m00s
[ 55/163] libarchive-0:3.7.7-2.fc42.x86 100% |  50.9 MiB/s | 416.9 KiB |  00m00s
[ 56/163] popt-0:1.19-8.fc42.x86_64     100% |  14.5 MiB/s |  59.4 KiB |  00m00s
[ 57/163] rpm-0:4.20.0-8.fc42.x86_64    100% |  63.2 MiB/s | 518.1 KiB |  00m00s
[ 58/163] binutils-0:2.43.50-12.fc42.x8 100% | 140.8 MiB/s |   5.8 MiB |  00m00s
[ 59/163] rpm-build-libs-0:4.20.0-8.fc4 100% |   9.6 MiB/s |  98.6 KiB |  00m00s
[ 60/163] rpm-libs-0:4.20.0-8.fc42.x86_ 100% |  30.6 MiB/s | 313.7 KiB |  00m00s
[ 61/163] curl-0:8.11.1-3.fc42.x86_64   100% |  36.3 MiB/s | 222.8 KiB |  00m00s
[ 62/163] zstd-0:1.5.6-3.fc42.x86_64    100% |  66.9 MiB/s | 479.6 KiB |  00m00s
[ 63/163] ansible-srpm-macros-0:1-17.1. 100% |   5.0 MiB/s |  20.3 KiB |  00m00s
[ 64/163] build-reproducibility-srpm-ma 100% |   2.3 MiB/s |  11.6 KiB |  00m00s
[ 65/163] glibc-gconv-extra-0:2.40.9000 100% | 125.5 MiB/s |   1.6 MiB |  00m00s
[ 66/163] dwz-0:0.15-9.fc42.x86_64      100% |  22.1 MiB/s | 135.7 KiB |  00m00s
[ 67/163] efi-srpm-macros-0:6-2.fc42.no 100% |   4.4 MiB/s |  22.5 KiB |  00m00s
[ 68/163] filesystem-srpm-macros-0:3.18 100% |   5.0 MiB/s |  25.6 KiB |  00m00s
[ 69/163] fonts-srpm-macros-1:2.0.5-21. 100% |   6.6 MiB/s |  27.1 KiB |  00m00s
[ 70/163] forge-srpm-macros-0:0.4.0-2.f 100% |   4.8 MiB/s |  19.9 KiB |  00m00s
[ 71/163] fpc-srpm-macros-0:1.3-14.fc42 100% |   2.0 MiB/s |   8.0 KiB |  00m00s
[ 72/163] ghc-srpm-macros-0:1.9.2-2.fc4 100% |   2.2 MiB/s |   9.2 KiB |  00m00s
[ 73/163] gnat-srpm-macros-0:6-7.fc42.n 100% |   2.1 MiB/s |   8.6 KiB |  00m00s
[ 74/163] go-srpm-macros-0:3.6.0-6.fc42 100% |   5.4 MiB/s |  27.7 KiB |  00m00s
[ 75/163] lua-srpm-macros-0:1-15.fc42.n 100% |   2.2 MiB/s |   8.9 KiB |  00m00s
[ 76/163] kernel-srpm-macros-0:1.0-25.f 100% |   1.9 MiB/s |   9.9 KiB |  00m00s
[ 77/163] ocaml-srpm-macros-0:10-4.fc42 100% |   1.8 MiB/s |   9.2 KiB |  00m00s
[ 78/163] openblas-srpm-macros-0:2-19.f 100% |   1.5 MiB/s |   7.8 KiB |  00m00s
[ 79/163] package-notes-srpm-macros-0:0 100% |   1.8 MiB/s |   9.3 KiB |  00m00s
[ 80/163] perl-srpm-macros-0:1-57.fc42. 100% |   2.1 MiB/s |   8.5 KiB |  00m00s
[ 81/163] pyproject-srpm-macros-0:1.16. 100% |   3.4 MiB/s |  14.0 KiB |  00m00s
[ 82/163] python-srpm-macros-0:3.13-4.f 100% |   5.6 MiB/s |  23.0 KiB |  00m00s
[ 83/163] qt5-srpm-macros-0:5.15.15-1.f 100% |   2.2 MiB/s |   8.9 KiB |  00m00s
[ 84/163] qt6-srpm-macros-0:6.8.1-5.fc4 100% |   2.3 MiB/s |   9.3 KiB |  00m00s
[ 85/163] rust-srpm-macros-0:26.3-4.fc4 100% |   2.9 MiB/s |  11.7 KiB |  00m00s
[ 86/163] zig-srpm-macros-0:1-4.fc42.no 100% |   2.0 MiB/s |   8.2 KiB |  00m00s
[ 87/163] zip-0:3.0-43.fc42.x86_64      100% |  51.5 MiB/s | 263.5 KiB |  00m00s
[ 88/163] pkgconf-0:2.3.0-2.fc42.x86_64 100% |   8.8 MiB/s |  44.9 KiB |  00m00s
[ 89/163] pkgconf-m4-0:2.3.0-2.fc42.noa 100% |   2.8 MiB/s |  14.2 KiB |  00m00s
[ 90/163] ed-0:1.21-2.fc42.x86_64       100% |  20.0 MiB/s |  82.0 KiB |  00m00s
[ 91/163] libpkgconf-0:2.3.0-2.fc42.x86 100% |   6.2 MiB/s |  38.4 KiB |  00m00s
[ 92/163] libattr-0:2.5.2-5.fc42.x86_64 100% |   4.2 MiB/s |  17.1 KiB |  00m00s
[ 93/163] authselect-0:1.5.0-9.fc42.x86 100% |  22.8 MiB/s | 140.0 KiB |  00m00s
[ 94/163] gdbm-1:1.23-9.fc42.x86_64     100% |  28.6 MiB/s | 146.2 KiB |  00m00s
[ 95/163] gdbm-libs-1:1.23-9.fc42.x86_6 100% |  13.9 MiB/s |  57.0 KiB |  00m00s
[ 96/163] libnsl2-0:2.0.1-3.fc42.x86_64 100% |   7.2 MiB/s |  29.5 KiB |  00m00s
[ 97/163] libpwquality-0:1.4.5-12.fc42. 100% |  26.3 MiB/s | 107.6 KiB |  00m00s
[ 98/163] libtirpc-0:1.3.6-1.rc3.fc42.2 100% |  18.7 MiB/s |  95.5 KiB |  00m00s
[ 99/163] crypto-policies-0:20250124-1. 100% |  12.0 MiB/s |  73.6 KiB |  00m00s
[100/163] ca-certificates-0:2024.2.69_v 100% |  92.3 MiB/s | 945.0 KiB |  00m00s
[101/163] ncurses-base-0:6.5-5.20250125 100% |  15.5 MiB/s |  63.5 KiB |  00m00s
[102/163] openssl-libs-1:3.2.2-14.fc42. 100% | 138.0 MiB/s |   2.3 MiB |  00m00s
[103/163] krb5-libs-0:1.21.3-5.fc42.x86 100% |  92.9 MiB/s | 760.6 KiB |  00m00s
[104/163] libcom_err-0:1.47.2-3.fc42.x8 100% |   5.3 MiB/s |  26.9 KiB |  00m00s
[105/163] libsepol-0:3.8-1.fc42.x86_64  100% |  56.8 MiB/s | 348.9 KiB |  00m00s
[106/163] cracklib-0:2.9.11-7.fc42.x86_ 100% |  15.9 MiB/s |  81.2 KiB |  00m00s
[107/163] pcre2-0:10.44-1.fc42.2.x86_64 100% |  39.6 MiB/s | 243.4 KiB |  00m00s
[108/163] lz4-libs-0:1.10.0-2.fc42.x86_ 100% |  19.1 MiB/s |  78.1 KiB |  00m00s
[109/163] libxml2-0:2.12.9-2.fc42.x86_6 100% |  85.0 MiB/s | 696.0 KiB |  00m00s
[110/163] libzstd-0:1.5.6-3.fc42.x86_64 100% |  43.4 MiB/s | 311.1 KiB |  00m00s
[111/163] keyutils-libs-0:1.6.3-5.fc42. 100% |   7.7 MiB/s |  31.5 KiB |  00m00s
[112/163] libverto-0:0.3.2-10.fc42.x86_ 100% |   5.1 MiB/s |  20.8 KiB |  00m00s
[113/163] glibc-common-0:2.40.9000-35.f 100% |  66.8 MiB/s | 410.7 KiB |  00m00s
[114/163] basesystem-0:11-22.fc42.noarc 100% |   1.8 MiB/s |   7.3 KiB |  00m00s
[115/163] gmp-1:6.3.0-2.fc41.x86_64     100% |  62.1 MiB/s | 318.0 KiB |  00m00s
[116/163] mpfr-0:4.2.1-6.fc42.x86_64    100% |  48.6 MiB/s | 348.5 KiB |  00m00s
[117/163] fedora-repos-0:42-0.4.noarch  100% |   2.3 MiB/s |   9.3 KiB |  00m00s
[118/163] file-libs-0:5.45-9.fc42.x86_6 100% |  93.2 MiB/s | 763.9 KiB |  00m00s
[119/163] elfutils-debuginfod-client-0: 100% |   9.1 MiB/s |  46.5 KiB |  00m00s
[120/163] elfutils-libs-0:0.192-8.fc42. 100% |  51.9 MiB/s | 265.9 KiB |  00m00s
[121/163] libstdc++-0:15.0.1-0.6.fc42.x 100% | 108.9 MiB/s | 892.0 KiB |  00m00s
[122/163] libffi-0:3.4.6-5.fc42.x86_64  100% |   9.7 MiB/s |  39.9 KiB |  00m00s
[123/163] p11-kit-trust-0:0.25.5-5.fc42 100% |  25.9 MiB/s | 132.6 KiB |  00m00s
[124/163] coreutils-common-0:9.6-1.fc42 100% | 161.1 MiB/s |   2.1 MiB |  00m00s
[125/163] p11-kit-0:0.25.5-5.fc42.x86_6 100% |  58.4 MiB/s | 478.0 KiB |  00m00s
[126/163] alternatives-0:1.31-3.fc42.x8 100% |  10.0 MiB/s |  40.9 KiB |  00m00s
[127/163] add-determinism-0:0.5.0-2.fc4 100% | 111.7 MiB/s | 914.6 KiB |  00m00s
[128/163] jansson-0:2.14-2.fc42.x86_64  100% |   8.9 MiB/s |  45.7 KiB |  00m00s
[129/163] lua-libs-0:5.4.7-2.fc42.x86_6 100% |  26.0 MiB/s | 133.0 KiB |  00m00s
[130/163] sqlite-libs-0:3.47.2-2.fc42.x 100% |  89.7 MiB/s | 734.8 KiB |  00m00s
[131/163] rpm-sequoia-0:1.7.0-4.fc42.x8 100% |  98.9 MiB/s | 911.3 KiB |  00m00s
[132/163] libgomp-0:15.0.1-0.6.fc42.x86 100% |  56.6 MiB/s | 347.6 KiB |  00m00s
[133/163] pcre2-syntax-0:10.44-1.fc42.2 100% |  29.2 MiB/s | 149.8 KiB |  00m00s
[134/163] libtasn1-0:4.19.0-11.fc42.x86 100% |  14.6 MiB/s |  74.5 KiB |  00m00s
[135/163] fedora-gpg-keys-0:42-0.4.noar 100% |  24.4 MiB/s | 125.2 KiB |  00m00s
[136/163] fedora-repos-rawhide-0:42-0.4 100% |   2.2 MiB/s |   8.9 KiB |  00m00s
[137/163] elfutils-default-yama-scope-0 100% |   3.1 MiB/s |  12.6 KiB |  00m00s
[138/163] json-c-0:0.18-2.fc42.x86_64   100% |  11.0 MiB/s |  44.9 KiB |  00m00s
[139/163] systemd-rpm-macros-0:257.2-17 100% |   8.5 MiB/s |  34.9 KiB |  00m00s
[140/163] dbus-1:1.16.0-3.fc42.x86_64   100% |   1.9 MiB/s |   7.8 KiB |  00m00s
[141/163] libseccomp-0:2.5.5-2.fc41.x86 100% |  17.1 MiB/s |  70.2 KiB |  00m00s
[142/163] systemd-pam-0:257.2-17.fc42.x 100% |  67.9 MiB/s | 417.0 KiB |  00m00s
[143/163] dbus-broker-0:36-5.fc42.x86_6 100% |  24.3 MiB/s | 174.1 KiB |  00m00s
[144/163] dbus-common-1:1.16.0-3.fc42.n 100% |   2.8 MiB/s |  14.5 KiB |  00m00s
[145/163] expat-0:2.6.4-2.fc42.x86_64   100% |  28.0 MiB/s | 114.7 KiB |  00m00s
[146/163] fedora-release-0:42-0.16.noar 100% |   2.2 MiB/s |  13.4 KiB |  00m00s
[147/163] fedora-release-identity-basic 100% |   2.3 MiB/s |  14.2 KiB |  00m00s
[148/163] systemd-0:257.2-17.fc42.x86_6 100% | 152.8 MiB/s |   5.8 MiB |  00m00s
[149/163] libcurl-0:8.11.1-3.fc42.x86_6 100% |  40.9 MiB/s | 376.9 KiB |  00m00s
[150/163] xxhash-libs-0:0.8.3-2.fc42.x8 100% |   9.5 MiB/s |  39.1 KiB |  00m00s
[151/163] libidn2-0:2.3.7-3.fc42.x86_64 100% |  27.4 MiB/s | 112.2 KiB |  00m00s
[152/163] libbrotli-0:1.1.0-6.fc42.x86_ 100% |  55.3 MiB/s | 339.8 KiB |  00m00s
[153/163] gdb-minimal-0:15.2-7.fc42.x86 100% | 145.3 MiB/s |   4.4 MiB |  00m00s
[154/163] libnghttp2-0:1.64.0-3.fc42.x8 100% |  12.6 MiB/s |  77.7 KiB |  00m00s
[155/163] libpsl-0:0.21.5-5.fc42.x86_64 100% |   8.9 MiB/s |  64.0 KiB |  00m00s
[156/163] openldap-0:2.6.9-3.fc42.x86_6 100% |  50.8 MiB/s | 260.2 KiB |  00m00s
[157/163] libssh-0:0.11.1-4.fc42.x86_64 100% |  38.0 MiB/s | 233.3 KiB |  00m00s
[158/163] cyrus-sasl-lib-0:2.1.28-30.fc 100% | 110.7 MiB/s | 793.5 KiB |  00m00s
[159/163] libtool-ltdl-0:2.5.4-4.fc42.x 100% |   8.8 MiB/s |  36.2 KiB |  00m00s
[160/163] libevent-0:2.1.12-15.fc42.x86 100% |  50.8 MiB/s | 260.2 KiB |  00m00s
[161/163] libssh-config-0:0.11.1-4.fc42 100% |   2.2 MiB/s |   9.0 KiB |  00m00s
[162/163] publicsuffix-list-dafsa-0:202 100% |  14.4 MiB/s |  58.8 KiB |  00m00s
[163/163] libunistring-0:1.1-9.fc42.x86 100% |  75.7 MiB/s | 542.5 KiB |  00m00s
--------------------------------------------------------------------------------
[163/163] Total                         100% | 140.3 MiB/s |  59.3 MiB |  00m00s
Running transaction
[  1/165] Verify package files          100% | 819.0   B/s | 163.0   B |  00m00s
>>> Running pre-transaction scriptlet: filesystem-0:3.18-36.fc42.x86_64
>>> Finished pre-transaction scriptlet: filesystem-0:3.18-36.fc42.x86_64
>>> [RPM] /var/lib/mock/fedora-rawhide-x86_64-1738535035.557167/root/var/cache/d
[  2/165] Prepare transaction           100% |   3.7 KiB/s | 163.0   B |  00m00s
[  3/165] Installing libgcc-0:15.0.1-0. 100% | 262.0 MiB/s | 268.3 KiB |  00m00s
[  4/165] Installing publicsuffix-list- 100% |   0.0   B/s |  69.2 KiB |  00m00s
[  5/165] Installing libssh-config-0:0. 100% |   0.0   B/s | 816.0   B |  00m00s
[  6/165] Installing fedora-release-ide 100% |   0.0   B/s | 976.0   B |  00m00s
[  7/165] Installing fedora-gpg-keys-0: 100% |  42.7 MiB/s | 174.8 KiB |  00m00s
[  8/165] Installing fedora-repos-rawhi 100% |   0.0   B/s |   2.4 KiB |  00m00s
[  9/165] Installing fedora-repos-0:42- 100% |   0.0   B/s |   5.7 KiB |  00m00s
[ 10/165] Installing fedora-release-com 100% |  23.6 MiB/s |  24.1 KiB |  00m00s
[ 11/165] Installing fedora-release-0:4 100% |   0.0   B/s | 124.0   B |  00m00s
[ 12/165] Installing setup-0:2.15.0-10. 100% |  59.1 MiB/s | 726.5 KiB |  00m00s
>>> [RPM] /etc/hosts created as /etc/hosts.rpmnew
[ 13/165] Installing filesystem-0:3.18- 100% |   2.8 MiB/s | 212.4 KiB |  00m00s
[ 14/165] Installing basesystem-0:11-22 100% |   0.0   B/s | 124.0   B |  00m00s
[ 15/165] Installing pcre2-syntax-0:10. 100% | 248.1 MiB/s | 254.1 KiB |  00m00s
[ 16/165] Installing coreutils-common-0 100% | 413.1 MiB/s |  11.2 MiB |  00m00s
[ 17/165] Installing ncurses-base-0:6.5 100% |  86.0 MiB/s | 352.2 KiB |  00m00s
[ 18/165] Installing glibc-minimal-lang 100% |   0.0   B/s | 124.0   B |  00m00s
[ 19/165] Installing ncurses-libs-0:6.5 100% | 232.6 MiB/s | 952.8 KiB |  00m00s
[ 20/165] Installing glibc-0:2.40.9000- 100% | 207.9 MiB/s |   6.7 MiB |  00m00s
[ 21/165] Installing bash-0:5.2.37-1.fc 100% | 272.3 MiB/s |   8.2 MiB |  00m00s
[ 22/165] Installing glibc-common-0:2.4 100% |  63.8 MiB/s |   1.0 MiB |  00m00s
[ 23/165] Installing glibc-gconv-extra- 100% | 252.1 MiB/s |   7.3 MiB |  00m00s
[ 24/165] Installing zlib-ng-compat-0:2 100% | 135.2 MiB/s | 138.4 KiB |  00m00s
[ 25/165] Installing xz-libs-1:5.6.3-3. 100% | 214.3 MiB/s | 219.4 KiB |  00m00s
[ 26/165] Installing bzip2-libs-0:1.0.8 100% |   0.0   B/s |  85.7 KiB |  00m00s
[ 27/165] Installing libuuid-0:2.40.4-2 100% |   0.0   B/s |  38.4 KiB |  00m00s
[ 28/165] Installing libblkid-0:2.40.4- 100% | 257.2 MiB/s | 263.4 KiB |  00m00s
[ 29/165] Installing readline-0:8.2-12. 100% | 237.9 MiB/s | 487.1 KiB |  00m00s
[ 30/165] Installing libxcrypt-0:4.4.38 100% | 264.3 MiB/s | 270.7 KiB |  00m00s
[ 31/165] Installing popt-0:1.19-8.fc42 100% |  68.1 MiB/s | 139.4 KiB |  00m00s
[ 32/165] Installing libzstd-0:1.5.6-3. 100% | 389.2 MiB/s | 797.0 KiB |  00m00s
[ 33/165] Installing elfutils-libelf-0: 100% | 390.1 MiB/s |   1.2 MiB |  00m00s
[ 34/165] Installing gmp-1:6.3.0-2.fc41 100% | 397.3 MiB/s | 813.7 KiB |  00m00s
[ 35/165] Installing libstdc++-0:15.0.1 100% | 402.9 MiB/s |   2.8 MiB |  00m00s
[ 36/165] Installing libcap-ng-0:0.8.5- 100% |   0.0   B/s |  74.8 KiB |  00m00s
[ 37/165] Installing audit-libs-0:4.0.3 100% | 345.1 MiB/s | 353.4 KiB |  00m00s
[ 38/165] Installing libeconf-0:0.7.5-2 100% |  68.5 MiB/s |  70.1 KiB |  00m00s
[ 39/165] Installing pam-libs-0:1.7.0-4 100% | 126.1 MiB/s | 129.1 KiB |  00m00s
[ 40/165] Installing libcap-0:2.73-2.fc 100% |  15.9 MiB/s | 212.1 KiB |  00m00s
[ 41/165] Installing systemd-libs-0:257 100% | 373.9 MiB/s |   2.2 MiB |  00m00s
[ 42/165] Installing libattr-0:2.5.2-5. 100% |   0.0   B/s |  28.1 KiB |  00m00s
[ 43/165] Installing libacl-0:2.3.2-3.f 100% |   0.0   B/s |  39.2 KiB |  00m00s
[ 44/165] Installing gdbm-libs-1:1.23-9 100% | 128.5 MiB/s | 131.6 KiB |  00m00s
[ 45/165] Installing mpfr-0:4.2.1-6.fc4 100% | 271.3 MiB/s | 833.6 KiB |  00m00s
[ 46/165] Installing gawk-0:5.3.1-1.fc4 100% |  99.7 MiB/s |   1.7 MiB |  00m00s
[ 47/165] Installing dwz-0:0.15-9.fc42. 100% |  23.8 MiB/s | 292.4 KiB |  00m00s
[ 48/165] Installing libfdisk-0:2.40.4- 100% | 364.7 MiB/s | 373.5 KiB |  00m00s
[ 49/165] Installing unzip-0:6.0-66.fc4 100% |  32.0 MiB/s | 393.8 KiB |  00m00s
[ 50/165] Installing file-libs-0:5.45-9 100% | 662.5 MiB/s |   9.9 MiB |  00m00s
[ 51/165] Installing file-0:5.45-9.fc42 100% |   5.4 MiB/s | 104.8 KiB |  00m00s
[ 52/165] Installing crypto-policies-0: 100% |  32.0 MiB/s | 163.7 KiB |  00m00s
[ 53/165] Installing libsmartcols-0:2.4 100% | 177.2 MiB/s | 181.4 KiB |  00m00s
[ 54/165] Installing libcom_err-0:1.47. 100% |   0.0   B/s |  68.2 KiB |  00m00s
[ 55/165] Installing libsepol-0:3.8-1.f 100% | 269.2 MiB/s | 827.0 KiB |  00m00s
[ 56/165] Installing pcre2-0:10.44-1.fc 100% | 317.7 MiB/s | 650.7 KiB |  00m00s
[ 57/165] Installing libselinux-0:3.8-1 100% | 189.8 MiB/s | 194.3 KiB |  00m00s
[ 58/165] Installing grep-0:3.11-10.fc4 100% |  62.7 MiB/s |   1.0 MiB |  00m00s
[ 59/165] Installing sed-0:4.9-4.fc42.x 100% |  56.3 MiB/s | 865.5 KiB |  00m00s
[ 60/165] Installing findutils-1:4.10.0 100% | 110.2 MiB/s |   1.9 MiB |  00m00s
[ 61/165] Installing libmount-0:2.40.4- 100% | 174.4 MiB/s | 357.2 KiB |  00m00s
[ 62/165] Installing util-linux-core-0: 100% |  83.9 MiB/s |   1.4 MiB |  00m00s
[ 63/165] Installing xz-1:5.6.3-3.fc42. 100% |  76.8 MiB/s |   1.2 MiB |  00m00s
[ 64/165] Installing lz4-libs-0:1.10.0- 100% | 154.7 MiB/s | 158.5 KiB |  00m00s
[ 65/165] Installing libffi-0:3.4.6-5.f 100% |   0.0   B/s |  83.7 KiB |  00m00s
[ 66/165] Installing alternatives-0:1.3 100% |   6.0 MiB/s |  67.7 KiB |  00m00s
[ 67/165] Installing lua-libs-0:5.4.7-2 100% | 275.5 MiB/s | 282.1 KiB |  00m00s
[ 68/165] Installing libtasn1-0:4.19.0- 100% | 173.2 MiB/s | 177.4 KiB |  00m00s
[ 69/165] Installing p11-kit-0:0.25.5-5 100% | 115.0 MiB/s |   2.2 MiB |  00m00s
[ 70/165] Installing libunistring-0:1.1 100% | 345.3 MiB/s |   1.7 MiB |  00m00s
[ 71/165] Installing libidn2-0:2.3.7-3. 100% | 163.6 MiB/s | 335.0 KiB |  00m00s
[ 72/165] Installing libpsl-0:0.21.5-5. 100% |   0.0   B/s |  77.5 KiB |  00m00s
[ 73/165] Installing p11-kit-trust-0:0. 100% |  19.4 MiB/s | 397.2 KiB |  00m00s
[ 74/165] Installing openssl-libs-1:3.2 100% | 373.1 MiB/s |   7.8 MiB |  00m00s
[ 75/165] Installing coreutils-0:9.6-1. 100% | 163.2 MiB/s |   5.5 MiB |  00m00s
[ 76/165] Installing ca-certificates-0: 100% |   2.0 MiB/s |   2.4 MiB |  00m01s
[ 77/165] Installing gzip-0:1.13-3.fc42 100% |  27.8 MiB/s | 398.4 KiB |  00m00s
[ 78/165] Installing authselect-libs-0: 100% | 163.1 MiB/s | 835.0 KiB |  00m00s
[ 79/165] Installing cracklib-0:2.9.11- 100% |  16.5 MiB/s | 253.7 KiB |  00m00s
[ 80/165] Installing libpwquality-0:1.4 100% |  29.4 MiB/s | 421.6 KiB |  00m00s
[ 81/165] Installing rpm-sequoia-0:1.7. 100% | 344.9 MiB/s |   2.4 MiB |  00m00s
[ 82/165] Installing libevent-0:2.1.12- 100% | 295.2 MiB/s | 906.9 KiB |  00m00s
[ 83/165] Installing zstd-0:1.5.6-3.fc4 100% | 105.9 MiB/s |   1.7 MiB |  00m00s
[ 84/165] Installing tar-2:1.35-5.fc42. 100% | 155.9 MiB/s |   3.0 MiB |  00m00s
[ 85/165] Installing libsemanage-0:3.8- 100% | 151.5 MiB/s | 310.2 KiB |  00m00s
[ 86/165] Installing shadow-utils-2:4.1 100% | 143.5 MiB/s |   4.0 MiB |  00m00s
[ 87/165] Installing zip-0:3.0-43.fc42. 100% |  49.0 MiB/s | 702.4 KiB |  00m00s
[ 88/165] Installing gdbm-1:1.23-9.fc42 100% |  34.9 MiB/s | 465.2 KiB |  00m00s
[ 89/165] Installing cyrus-sasl-lib-0:2 100% | 135.5 MiB/s |   2.3 MiB |  00m00s
[ 90/165] Installing bzip2-0:1.0.8-20.f 100% |   8.5 MiB/s | 103.8 KiB |  00m00s
[ 91/165] Installing libxml2-0:2.12.9-2 100% | 106.7 MiB/s |   1.7 MiB |  00m00s
[ 92/165] Installing libarchive-0:3.7.7 100% | 306.2 MiB/s | 940.6 KiB |  00m00s
[ 93/165] Installing add-determinism-0: 100% | 144.5 MiB/s |   2.5 MiB |  00m00s
[ 94/165] Installing build-reproducibil 100% |   0.0   B/s |   1.0 KiB |  00m00s
[ 95/165] Installing sqlite-libs-0:3.47 100% | 376.1 MiB/s |   1.5 MiB |  00m00s
[ 96/165] Installing filesystem-srpm-ma 100% |   0.0   B/s |  38.9 KiB |  00m00s
[ 97/165] Installing ed-0:1.21-2.fc42.x 100% |  12.1 MiB/s | 148.8 KiB |  00m00s
[ 98/165] Installing patch-0:2.7.6-26.f 100% |  21.2 MiB/s | 260.2 KiB |  00m00s
[ 99/165] Installing elfutils-default-y 100% | 340.5 KiB/s |   2.0 KiB |  00m00s
[100/165] Installing elfutils-libs-0:0. 100% | 220.3 MiB/s | 676.7 KiB |  00m00s
[101/165] Installing dbus-common-1:1.16 100% |   2.2 MiB/s |  13.6 KiB |  00m00s
[102/165] Installing cpio-0:2.15-2.fc41 100% |  64.7 MiB/s |   1.1 MiB |  00m00s
[103/165] Installing diffutils-0:3.10-9 100% |  93.5 MiB/s |   1.6 MiB |  00m00s
[104/165] Installing libpkgconf-0:2.3.0 100% |  77.4 MiB/s |  79.2 KiB |  00m00s
[105/165] Installing pkgconf-0:2.3.0-2. 100% |   7.4 MiB/s |  91.0 KiB |  00m00s
[106/165] Installing keyutils-libs-0:1. 100% |  58.3 MiB/s |  59.7 KiB |  00m00s
[107/165] Installing libverto-0:0.3.2-1 100% |  26.6 MiB/s |  27.2 KiB |  00m00s
[108/165] Installing krb5-libs-0:1.21.3 100% | 328.5 MiB/s |   2.3 MiB |  00m00s
[109/165] Installing libtirpc-0:1.3.6-1 100% | 196.0 MiB/s | 200.7 KiB |  00m00s
[110/165] Installing libnsl2-0:2.0.1-3. 100% |  57.6 MiB/s |  59.0 KiB |  00m00s
[111/165] Installing pam-0:1.7.0-4.fc42 100% |  73.7 MiB/s |   1.7 MiB |  00m00s
[112/165] Installing util-linux-0:2.40. 100% | 101.8 MiB/s |   3.5 MiB |  00m00s
[113/165] Installing libssh-0:0.11.1-4. 100% | 277.1 MiB/s | 567.5 KiB |  00m00s
[114/165] Installing jansson-0:2.14-2.f 100% |  92.2 MiB/s |  94.4 KiB |  00m00s
[115/165] Installing libgomp-0:15.0.1-0 100% | 262.2 MiB/s | 537.0 KiB |  00m00s
[116/165] Installing json-c-0:0.18-2.fc 100% |  85.9 MiB/s |  88.0 KiB |  00m00s
[117/165] Installing libseccomp-0:2.5.5 100% | 171.1 MiB/s | 175.2 KiB |  00m00s
[118/165] Installing expat-0:2.6.4-2.fc 100% |  11.5 MiB/s | 294.9 KiB |  00m00s
[119/165] Installing dbus-broker-0:36-5 100% |  18.5 MiB/s | 397.6 KiB |  00m00s
[120/165] Installing dbus-1:1.16.0-3.fc 100% |   0.0   B/s | 124.0   B |  00m00s
[121/165] Installing systemd-pam-0:257. 100% | 185.4 MiB/s |   1.1 MiB |  00m00s
[122/165] Installing systemd-0:257.2-17 100% | 113.1 MiB/s |  17.5 MiB |  00m00s
>>> Running post-install scriptlet: systemd-0:257.2-17.fc42.x86_64
>>> Finished post-install scriptlet: systemd-0:257.2-17.fc42.x86_64
>>> Scriptlet output:
>>> Creating group 'systemd-journal' with GID 190.
>>> Creating group 'systemd-oom' with GID 999.
>>> Creating user 'systemd-oom' (systemd Userspace OOM Killer) with UID 999 and 
>>> 
[123/165] Installing rpm-libs-0:4.20.0- 100% | 235.4 MiB/s | 723.3 KiB |  00m00s
[124/165] Installing rpm-build-libs-0:4 100% | 198.7 MiB/s | 203.4 KiB |  00m00s
[125/165] Installing xxhash-libs-0:0.8. 100% |  89.4 MiB/s |  91.6 KiB |  00m00s
[126/165] Installing libbrotli-0:1.1.0- 100% | 274.6 MiB/s | 843.6 KiB |  00m00s
[127/165] Installing libnghttp2-0:1.64. 100% | 167.5 MiB/s | 171.5 KiB |  00m00s
[128/165] Installing libtool-ltdl-0:2.5 100% |   0.0   B/s |  71.2 KiB |  00m00s
[129/165] Installing openldap-0:2.6.9-3 100% | 214.5 MiB/s | 658.9 KiB |  00m00s
[130/165] Installing libcurl-0:8.11.1-3 100% | 274.5 MiB/s | 843.1 KiB |  00m00s
[131/165] Installing elfutils-debuginfo 100% |   6.5 MiB/s |  86.2 KiB |  00m00s
[132/165] Installing binutils-0:2.43.50 100% | 319.2 MiB/s |  25.9 MiB |  00m00s
[133/165] Installing elfutils-0:0.192-8 100% | 141.4 MiB/s |   2.7 MiB |  00m00s
[134/165] Installing gdb-minimal-0:15.2 100% | 277.5 MiB/s |  13.0 MiB |  00m00s
[135/165] Installing debugedit-0:5.1-4. 100% |  16.5 MiB/s | 203.1 KiB |  00m00s
[136/165] Installing curl-0:8.11.1-3.fc 100% |  21.3 MiB/s | 457.1 KiB |  00m00s
[137/165] Installing rpm-0:4.20.0-8.fc4 100% |  95.7 MiB/s |   2.5 MiB |  00m00s
[138/165] Installing efi-srpm-macros-0: 100% |  40.1 MiB/s |  41.1 KiB |  00m00s
[139/165] Installing lua-srpm-macros-0: 100% |   0.0   B/s |   1.9 KiB |  00m00s
[140/165] Installing zig-srpm-macros-0: 100% |   0.0   B/s |   1.7 KiB |  00m00s
[141/165] Installing pkgconf-m4-0:2.3.0 100% |   0.0   B/s |  14.8 KiB |  00m00s
[142/165] Installing pkgconf-pkg-config 100% | 161.2 KiB/s |   1.8 KiB |  00m00s
[143/165] Installing rust-srpm-macros-0 100% |   0.0   B/s |   5.6 KiB |  00m00s
[144/165] Installing qt6-srpm-macros-0: 100% |   0.0   B/s | 732.0   B |  00m00s
[145/165] Installing qt5-srpm-macros-0: 100% |   0.0   B/s | 776.0   B |  00m00s
[146/165] Installing perl-srpm-macros-0 100% |   0.0   B/s |   1.1 KiB |  00m00s
[147/165] Installing package-notes-srpm 100% |   0.0   B/s |   2.0 KiB |  00m00s
[148/165] Installing openblas-srpm-macr 100% |   0.0   B/s | 392.0   B |  00m00s
[149/165] Installing ocaml-srpm-macros- 100% |   0.0   B/s |   2.2 KiB |  00m00s
[150/165] Installing kernel-srpm-macros 100% |   0.0   B/s |   2.3 KiB |  00m00s
[151/165] Installing gnat-srpm-macros-0 100% |   0.0   B/s |   1.3 KiB |  00m00s
[152/165] Installing ghc-srpm-macros-0: 100% |   0.0   B/s |   1.0 KiB |  00m00s
[153/165] Installing fpc-srpm-macros-0: 100% |   0.0   B/s | 420.0   B |  00m00s
[154/165] Installing ansible-srpm-macro 100% |   0.0   B/s |  36.2 KiB |  00m00s
[155/165] Installing fonts-srpm-macros- 100% |   0.0   B/s |  57.0 KiB |  00m00s
[156/165] Installing forge-srpm-macros- 100% |   0.0   B/s |  40.3 KiB |  00m00s
[157/165] Installing go-srpm-macros-0:3 100% |   0.0   B/s |  62.0 KiB |  00m00s
[158/165] Installing python-srpm-macros 100% |  50.9 MiB/s |  52.2 KiB |  00m00s
[159/165] Installing redhat-rpm-config- 100% |  94.5 MiB/s | 193.5 KiB |  00m00s
[160/165] Installing rpm-build-0:4.20.0 100% |  13.0 MiB/s | 173.7 KiB |  00m00s
[161/165] Installing pyproject-srpm-mac 100% |   0.0   B/s |   2.5 KiB |  00m00s
[162/165] Installing authselect-0:1.5.0 100% |  12.1 MiB/s | 160.4 KiB |  00m00s
[163/165] Installing which-0:2.22-2.fc4 100% |   6.9 MiB/s |  85.3 KiB |  00m00s
[164/165] Installing info-0:7.2-3.fc42. 100% |  26.9 MiB/s | 358.3 KiB |  00m00s
[165/165] Installing systemd-rpm-macros 100% |   6.7 KiB/s |  11.3 KiB |  00m02s
Warning: skipped OpenPGP checks for 163 packages from repositories: copr_base, http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch
Complete!
Finish: installing minimal buildroot with dnf5
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
INFO: add-determinism-0.5.0-2.fc42.x86_64
alternatives-1.31-3.fc42.x86_64
ansible-srpm-macros-1-17.1.fc42.noarch
audit-libs-4.0.3-2.fc42.x86_64
authselect-1.5.0-9.fc42.x86_64
authselect-libs-1.5.0-9.fc42.x86_64
basesystem-11-22.fc42.noarch
bash-5.2.37-1.fc42.x86_64
binutils-2.43.50-12.fc42.x86_64
build-reproducibility-srpm-macros-0.5.0-2.fc42.noarch
bzip2-1.0.8-20.fc42.x86_64
bzip2-libs-1.0.8-20.fc42.x86_64
ca-certificates-2024.2.69_v8.0.401-5.fc42.noarch
coreutils-9.6-1.fc42.x86_64
coreutils-common-9.6-1.fc42.x86_64
cpio-2.15-2.fc41.x86_64
cracklib-2.9.11-7.fc42.x86_64
crypto-policies-20250124-1.git4d262e7.fc42.noarch
curl-8.11.1-3.fc42.x86_64
cyrus-sasl-lib-2.1.28-30.fc42.x86_64
dbus-1.16.0-3.fc42.x86_64
dbus-broker-36-5.fc42.x86_64
dbus-common-1.16.0-3.fc42.noarch
debugedit-5.1-4.fc42.x86_64
diffutils-3.10-9.fc42.x86_64
dwz-0.15-9.fc42.x86_64
ed-1.21-2.fc42.x86_64
efi-srpm-macros-6-2.fc42.noarch
elfutils-0.192-8.fc42.x86_64
elfutils-debuginfod-client-0.192-8.fc42.x86_64
elfutils-default-yama-scope-0.192-8.fc42.noarch
elfutils-libelf-0.192-8.fc42.x86_64
elfutils-libs-0.192-8.fc42.x86_64
expat-2.6.4-2.fc42.x86_64
fedora-gpg-keys-42-0.4.noarch
fedora-release-42-0.16.noarch
fedora-release-common-42-0.16.noarch
fedora-release-identity-basic-42-0.16.noarch
fedora-repos-42-0.4.noarch
fedora-repos-rawhide-42-0.4.noarch
file-5.45-9.fc42.x86_64
file-libs-5.45-9.fc42.x86_64
filesystem-3.18-36.fc42.x86_64
filesystem-srpm-macros-3.18-36.fc42.noarch
findutils-4.10.0-5.fc42.x86_64
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-5.3.1-1.fc42.x86_64
gdb-minimal-15.2-7.fc42.x86_64
gdbm-1.23-9.fc42.x86_64
gdbm-libs-1.23-9.fc42.x86_64
ghc-srpm-macros-1.9.2-2.fc42.noarch
glibc-2.40.9000-35.fc42.x86_64
glibc-common-2.40.9000-35.fc42.x86_64
glibc-gconv-extra-2.40.9000-35.fc42.x86_64
glibc-minimal-langpack-2.40.9000-35.fc42.x86_64
gmp-6.3.0-2.fc41.x86_64
gnat-srpm-macros-6-7.fc42.noarch
go-srpm-macros-3.6.0-6.fc42.noarch
grep-3.11-10.fc42.x86_64
gzip-1.13-3.fc42.x86_64
info-7.2-3.fc42.x86_64
jansson-2.14-2.fc42.x86_64
json-c-0.18-2.fc42.x86_64
kernel-srpm-macros-1.0-25.fc42.noarch
keyutils-libs-1.6.3-5.fc42.x86_64
krb5-libs-1.21.3-5.fc42.x86_64
libacl-2.3.2-3.fc42.x86_64
libarchive-3.7.7-2.fc42.x86_64
libattr-2.5.2-5.fc42.x86_64
libblkid-2.40.4-2.fc42.x86_64
libbrotli-1.1.0-6.fc42.x86_64
libcap-2.73-2.fc42.x86_64
libcap-ng-0.8.5-4.fc42.x86_64
libcom_err-1.47.2-3.fc42.x86_64
libcurl-8.11.1-3.fc42.x86_64
libeconf-0.7.5-2.fc42.x86_64
libevent-2.1.12-15.fc42.x86_64
libfdisk-2.40.4-2.fc42.x86_64
libffi-3.4.6-5.fc42.x86_64
libgcc-15.0.1-0.6.fc42.x86_64
libgomp-15.0.1-0.6.fc42.x86_64
libidn2-2.3.7-3.fc42.x86_64
libmount-2.40.4-2.fc42.x86_64
libnghttp2-1.64.0-3.fc42.x86_64
libnsl2-2.0.1-3.fc42.x86_64
libpkgconf-2.3.0-2.fc42.x86_64
libpsl-0.21.5-5.fc42.x86_64
libpwquality-1.4.5-12.fc42.x86_64
libseccomp-2.5.5-2.fc41.x86_64
libselinux-3.8-1.fc42.x86_64
libsemanage-3.8-1.fc42.x86_64
libsepol-3.8-1.fc42.x86_64
libsmartcols-2.40.4-2.fc42.x86_64
libssh-0.11.1-4.fc42.x86_64
libssh-config-0.11.1-4.fc42.noarch
libstdc++-15.0.1-0.6.fc42.x86_64
libtasn1-4.19.0-11.fc42.x86_64
libtirpc-1.3.6-1.rc3.fc42.2.x86_64
libtool-ltdl-2.5.4-4.fc42.x86_64
libunistring-1.1-9.fc42.x86_64
libuuid-2.40.4-2.fc42.x86_64
libverto-0.3.2-10.fc42.x86_64
libxcrypt-4.4.38-4.fc42.x86_64
libxml2-2.12.9-2.fc42.x86_64
libzstd-1.5.6-3.fc42.x86_64
lua-libs-5.4.7-2.fc42.x86_64
lua-srpm-macros-1-15.fc42.noarch
lz4-libs-1.10.0-2.fc42.x86_64
mpfr-4.2.1-6.fc42.x86_64
ncurses-base-6.5-5.20250125.fc42.noarch
ncurses-libs-6.5-5.20250125.fc42.x86_64
ocaml-srpm-macros-10-4.fc42.noarch
openblas-srpm-macros-2-19.fc42.noarch
openldap-2.6.9-3.fc42.x86_64
openssl-libs-3.2.2-14.fc42.x86_64
p11-kit-0.25.5-5.fc42.x86_64
p11-kit-trust-0.25.5-5.fc42.x86_64
package-notes-srpm-macros-0.5-13.fc42.noarch
pam-1.7.0-4.fc42.x86_64
pam-libs-1.7.0-4.fc42.x86_64
patch-2.7.6-26.fc42.x86_64
pcre2-10.44-1.fc42.2.x86_64
pcre2-syntax-10.44-1.fc42.2.noarch
perl-srpm-macros-1-57.fc42.noarch
pkgconf-2.3.0-2.fc42.x86_64
pkgconf-m4-2.3.0-2.fc42.noarch
pkgconf-pkg-config-2.3.0-2.fc42.x86_64
popt-1.19-8.fc42.x86_64
publicsuffix-list-dafsa-20250116-1.fc42.noarch
pyproject-srpm-macros-1.16.4-2.fc42.noarch
python-srpm-macros-3.13-4.fc42.noarch
qt5-srpm-macros-5.15.15-1.fc42.noarch
qt6-srpm-macros-6.8.1-5.fc42.noarch
readline-8.2-12.fc42.x86_64
redhat-rpm-config-342-1.fc42.noarch
rpm-4.20.0-8.fc42.x86_64
rpm-build-4.20.0-8.fc42.x86_64
rpm-build-libs-4.20.0-8.fc42.x86_64
rpm-libs-4.20.0-8.fc42.x86_64
rpm-sequoia-1.7.0-4.fc42.x86_64
rust-srpm-macros-26.3-4.fc42.noarch
sed-4.9-4.fc42.x86_64
setup-2.15.0-10.fc42.noarch
shadow-utils-4.17.0-4.fc42.x86_64
sqlite-libs-3.47.2-2.fc42.x86_64
systemd-257.2-17.fc42.x86_64
systemd-libs-257.2-17.fc42.x86_64
systemd-pam-257.2-17.fc42.x86_64
systemd-rpm-macros-257.2-17.fc42.noarch
tar-1.35-5.fc42.x86_64
unzip-6.0-66.fc42.x86_64
util-linux-2.40.4-2.fc42.x86_64
util-linux-core-2.40.4-2.fc42.x86_64
which-2.22-2.fc42.x86_64
xxhash-libs-0.8.3-2.fc42.x86_64
xz-5.6.3-3.fc42.x86_64
xz-libs-5.6.3-3.fc42.x86_64
zig-srpm-macros-1-4.fc42.noarch
zip-3.0-43.fc42.x86_64
zlib-ng-compat-2.2.3-2.fc42.x86_64
zstd-1.5.6-3.fc42.x86_64
Start: buildsrpm
Start: rpmbuild -bs
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1738454400
Wrote: /builddir/build/SRPMS/mmseq-1.0.11-23.fc42.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-x86_64-1738535035.557167/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-rk4h6df7/mmseq/mmseq.spec) Config(child) 0 minutes 20 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/mmseq-1.0.11-23.fc42.src.rpm)  Config(fedora-rawhide-x86_64)
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-x86_64-bootstrap-1738535035.557167/root.
INFO: reusing tmpfs at /var/lib/mock/fedora-rawhide-x86_64-bootstrap-1738535035.557167/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-x86_64-1738535035.557167/root.
INFO: calling preinit hooks
INFO: enabled root cache
Start: unpacking root cache
Finish: unpacking root cache
INFO: enabled package manager cache
Start: cleaning package manager metadata
Finish: cleaning package manager metadata
INFO: enabled HW Info plugin
INFO: Buildroot is handled by package management downloaded with a bootstrap image:
  rpm-4.20.0-1.fc42.x86_64
  rpm-sequoia-1.7.0-3.fc42.x86_64
  dnf5-5.2.8.1-2.fc42.x86_64
  dnf5-plugins-5.2.8.1-2.fc42.x86_64
Finish: chroot init
Start: build phase for mmseq-1.0.11-23.fc42.src.rpm
Start: build setup for mmseq-1.0.11-23.fc42.src.rpm
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1738454400
Wrote: /builddir/build/SRPMS/mmseq-1.0.11-23.fc42.src.rpm
Updating and loading repositories:
 fedora                                 100% | 866.9 KiB/s |  26.0 KiB |  00m00s
 Additional repo http_kojipkgs_fedorapr 100% | 191.5 KiB/s |   3.8 KiB |  00m00s
 Copr repository                        100% | 109.8 KiB/s |   1.5 KiB |  00m00s
Repositories loaded.
Package                      Arch   Version              Repository                                                         Size
Installing:
 armadillo-devel             x86_64 12.8.1-6.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   7.3 MiB
 boost-devel                 x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 143.0 MiB
 flexiblas-devel             x86_64 3.4.4-7.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   4.8 MiB
 gcc-c++                     x86_64 15.0.1-0.6.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  41.3 MiB
 gsl-devel                   x86_64 2.7.1-13.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.6 MiB
 htslib-devel                x86_64 1.15.1-8.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 411.0 KiB
 make                        x86_64 1:4.4.1-10.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.8 MiB
 perl-generators             noarch 1.16-7.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  21.8 KiB
 zlib-ng-compat-devel        x86_64 2.2.3-2.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 107.0 KiB
Installing dependencies:
 SuperLU                     x86_64 7.0.0-2.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 489.4 KiB
 SuperLU-devel               x86_64 7.0.0-2.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 103.5 KiB
 annobin-docs                noarch 12.87-1.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  98.6 KiB
 annobin-plugin-gcc          x86_64 12.87-1.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 991.8 KiB
 armadillo                   x86_64 12.8.1-6.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  82.6 KiB
 arpack                      x86_64 3.9.1-6.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 646.0 KiB
 arpack-devel                x86_64 3.9.1-6.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  69.1 KiB
 boost                       x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.3 KiB
 boost-atomic                x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  20.9 KiB
 boost-chrono                x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  37.5 KiB
 boost-container             x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  65.4 KiB
 boost-context               x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  12.4 KiB
 boost-contract              x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  99.1 KiB
 boost-coroutine             x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  21.1 KiB
 boost-date-time             x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  12.2 KiB
 boost-fiber                 x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  78.7 KiB
 boost-filesystem            x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 143.6 KiB
 boost-graph                 x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 350.7 KiB
 boost-iostreams             x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  90.6 KiB
 boost-json                  x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 333.1 KiB
 boost-locale                x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 613.8 KiB
 boost-log                   x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.5 MiB
 boost-math                  x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 642.6 KiB
 boost-nowide                x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  20.8 KiB
 boost-numpy3                x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  57.6 KiB
 boost-program-options       x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 276.7 KiB
 boost-python3               x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 254.4 KiB
 boost-random                x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  29.6 KiB
 boost-regex                 x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 287.3 KiB
 boost-serialization         x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 441.6 KiB
 boost-stacktrace            x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  55.8 KiB
 boost-system                x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  12.2 KiB
 boost-test                  x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 634.8 KiB
 boost-thread                x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 132.7 KiB
 boost-timer                 x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  21.0 KiB
 boost-type_erasure          x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  54.1 KiB
 boost-wave                  x86_64 1.83.0-12.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 856.2 KiB
 cmake-filesystem            x86_64 3.31.5-1.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   0.0   B
 cpp                         x86_64 15.0.1-0.6.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  38.0 MiB
 flexiblas                   x86_64 3.4.4-7.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  48.5 KiB
 flexiblas-netlib            x86_64 3.4.4-7.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  10.6 MiB
 flexiblas-netlib64          x86_64 3.4.4-7.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  10.7 MiB
 flexiblas-openblas-openmp   x86_64 3.4.4-7.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  43.2 KiB
 flexiblas-openblas-openmp64 x86_64 3.4.4-7.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  43.2 KiB
 gcc                         x86_64 15.0.1-0.6.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 111.0 MiB
 gcc-gfortran                x86_64 15.0.1-0.6.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  40.3 MiB
 gcc-plugin-annobin          x86_64 15.0.1-0.6.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  57.2 KiB
 glibc-devel                 x86_64 2.40.9000-35.fc42    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.3 MiB
 groff-base                  x86_64 1.23.0-8.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.9 MiB
 gsl                         x86_64 2.7.1-13.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.3 MiB
 hdf5                        x86_64 1.14.5-2.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   7.1 MiB
 hdf5-devel                  x86_64 1.14.5-2.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.3 MiB
 htslib                      x86_64 1.15.1-8.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.1 MiB
 kernel-headers              x86_64 6.13.0-62.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   6.5 MiB
 libaec                      x86_64 1.1.3-2.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  97.9 KiB
 libaec-devel                x86_64 1.1.3-2.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  12.5 KiB
 libb2                       x86_64 0.98.1-13.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  46.1 KiB
 libgfortran                 x86_64 15.0.1-0.6.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.3 MiB
 libicu                      x86_64 76.1-4.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  36.3 MiB
 libicu-devel                x86_64 76.1-4.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   5.0 MiB
 libmpc                      x86_64 1.3.1-7.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 164.5 KiB
 libquadmath                 x86_64 15.0.1-0.6.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 317.9 KiB
 libquadmath-devel           x86_64 15.0.1-0.6.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  21.9 KiB
 libstdc++-devel             x86_64 15.0.1-0.6.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  15.9 MiB
 libxcrypt-devel             x86_64 4.4.38-4.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  30.8 KiB
 metis                       x86_64 5.1.0.3-7.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 980.1 KiB
 mpdecimal                   x86_64 2.5.1-17.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 200.8 KiB
 ncurses                     x86_64 6.5-5.20250125.fc42  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 608.1 KiB
 openblas                    x86_64 0.3.29-1.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 111.7 KiB
 openblas-openmp             x86_64 0.3.29-1.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  43.7 MiB
 openblas-openmp64           x86_64 0.3.29-1.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  43.9 MiB
 perl-AutoLoader             noarch 5.74-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  20.5 KiB
 perl-B                      x86_64 1.89-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 498.0 KiB
 perl-Carp                   noarch 1.54-512.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  46.6 KiB
 perl-Class-Struct           noarch 0.68-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  25.4 KiB
 perl-Data-Dumper            x86_64 2.189-513.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 115.6 KiB
 perl-Digest                 noarch 1.20-512.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  35.3 KiB
 perl-Digest-MD5             x86_64 2.59-6.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  59.7 KiB
 perl-DynaLoader             x86_64 1.56-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  32.1 KiB
 perl-Encode                 x86_64 4:3.21-512.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   4.7 MiB
 perl-Errno                  x86_64 1.38-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   8.3 KiB
 perl-Exporter               noarch 5.78-512.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  54.3 KiB
 perl-Fcntl                  x86_64 1.18-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  48.9 KiB
 perl-Fedora-VSP             noarch 0.001-36.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  39.7 KiB
 perl-File-Basename          noarch 2.86-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  14.0 KiB
 perl-File-Path              noarch 2.18-512.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  63.5 KiB
 perl-File-Temp              noarch 1:0.231.100-512.fc42 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 162.3 KiB
 perl-File-stat              noarch 1.14-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  12.5 KiB
 perl-FileHandle             noarch 2.05-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   9.3 KiB
 perl-Getopt-Long            noarch 1:2.58-3.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 144.5 KiB
 perl-Getopt-Std             noarch 1.14-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  11.2 KiB
 perl-HTTP-Tiny              noarch 0.090-2.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 154.4 KiB
 perl-IO                     x86_64 1.55-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 147.0 KiB
 perl-IO-Socket-IP           noarch 0.43-2.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 100.3 KiB
 perl-IO-Socket-SSL          noarch 2.089-2.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 703.3 KiB
 perl-IPC-Open3              noarch 1.22-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  22.5 KiB
 perl-MIME-Base32            noarch 1.303-23.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  30.7 KiB
 perl-MIME-Base64            x86_64 3.16-512.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  42.0 KiB
 perl-Net-SSLeay             x86_64 1.94-8.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.3 MiB
 perl-POSIX                  x86_64 2.20-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 231.0 KiB
 perl-PathTools              x86_64 3.91-513.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 180.0 KiB
 perl-Pod-Escapes            noarch 1:1.07-512.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  24.9 KiB
 perl-Pod-Perldoc            noarch 3.28.01-513.fc42     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 163.7 KiB
 perl-Pod-Simple             noarch 1:3.45-512.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 560.8 KiB
 perl-Pod-Usage              noarch 4:2.03-512.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  84.8 KiB
 perl-Scalar-List-Utils      x86_64 5:1.68-2.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 144.8 KiB
 perl-SelectSaver            noarch 1.02-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.2 KiB
 perl-Socket                 x86_64 4:2.038-512.fc42     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 119.9 KiB
 perl-Storable               x86_64 1:3.32-512.fc42      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 232.3 KiB
 perl-Symbol                 noarch 1.09-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   6.8 KiB
 perl-Term-ANSIColor         noarch 5.01-513.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  97.5 KiB
 perl-Term-Cap               noarch 1.18-512.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  29.3 KiB
 perl-Text-ParseWords        noarch 3.31-512.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  13.6 KiB
 perl-Text-Tabs+Wrap         noarch 2024.001-512.fc42    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  22.6 KiB
 perl-Time-Local             noarch 2:1.350-512.fc42     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  68.9 KiB
 perl-URI                    noarch 5.31-2.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 257.0 KiB
 perl-base                   noarch 2.27-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  12.5 KiB
 perl-constant               noarch 1.33-513.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  26.2 KiB
 perl-if                     noarch 0.61.000-515.fc42    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   5.8 KiB
 perl-interpreter            x86_64 4:5.40.1-515.fc42    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 118.1 KiB
 perl-libnet                 noarch 3.15-513.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 289.4 KiB
 perl-libs                   x86_64 4:5.40.1-515.fc42    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   9.8 MiB
 perl-locale                 noarch 1.12-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   6.5 KiB
 perl-macros                 noarch 4:5.40.1-515.fc42    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   5.5 KiB
 perl-mro                    x86_64 1.29-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  41.5 KiB
 perl-overload               noarch 1.37-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  71.5 KiB
 perl-overloading            noarch 0.02-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   4.8 KiB
 perl-parent                 noarch 1:0.244-2.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  10.3 KiB
 perl-podlators              noarch 1:6.0.2-3.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 317.5 KiB
 perl-vars                   noarch 1.05-515.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.9 KiB
 python-pip-wheel            noarch 24.3.1-2.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.2 MiB
 python3                     x86_64 3.13.1-3.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  27.6 KiB
 python3-libs                x86_64 3.13.1-3.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  39.9 MiB
 python3-numpy               x86_64 1:2.2.2-2.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  40.1 MiB
 python3-numpy-f2py          x86_64 1:2.2.2-2.fc42       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.0 MiB
 tzdata                      noarch 2024b-2.fc42         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.6 MiB

Transaction Summary:
 Installing:       145 packages

Total size of inbound packages is 168 MiB. Need to download 168 MiB.
After this operation, 705 MiB extra will be used (install 705 MiB, remove 0 B).
[  1/145] flexiblas-devel-0:3.4.4-7.fc4 100% |   2.3 MiB/s | 113.2 KiB |  00m00s
[  2/145] boost-devel-0:1.83.0-12.fc42. 100% | 121.0 MiB/s |  11.7 MiB |  00m00s
[  3/145] gsl-devel-0:2.7.1-13.fc42.x86 100% |  59.5 MiB/s | 609.6 KiB |  00m00s
[  4/145] htslib-devel-0:1.15.1-8.fc42. 100% |  19.4 MiB/s |  99.1 KiB |  00m00s
[  5/145] gcc-c++-0:15.0.1-0.6.fc42.x86 100% | 197.4 MiB/s |  15.2 MiB |  00m00s
[  6/145] perl-generators-0:1.16-7.fc42 100% |   4.0 MiB/s |  16.3 KiB |  00m00s
[  7/145] make-1:4.4.1-10.fc42.x86_64   100% |  29.8 MiB/s | 579.9 KiB |  00m00s
[  8/145] zlib-ng-compat-devel-0:2.2.3- 100% |   9.4 MiB/s |  38.4 KiB |  00m00s
[  9/145] libstdc++-devel-0:15.0.1-0.6. 100% | 133.8 MiB/s |   2.7 MiB |  00m00s
[ 10/145] armadillo-devel-0:12.8.1-6.fc 100% |  12.7 MiB/s |   2.0 MiB |  00m00s
[ 11/145] gsl-0:2.7.1-13.fc42.x86_64    100% |  59.6 MiB/s |   1.1 MiB |  00m00s
[ 12/145] libquadmath-devel-0:15.0.1-0. 100% |   2.6 MiB/s |  26.7 KiB |  00m00s
[ 13/145] libquadmath-0:15.0.1-0.6.fc42 100% |  15.0 MiB/s | 184.8 KiB |  00m00s
[ 14/145] cmake-filesystem-0:3.31.5-1.f 100% |   1.3 MiB/s |  17.7 KiB |  00m00s
[ 15/145] perl-Fedora-VSP-0:0.001-36.fc 100% |   3.2 MiB/s |  22.9 KiB |  00m00s
[ 16/145] perl-File-Basename-0:2.86-515 100% |   3.4 MiB/s |  17.2 KiB |  00m00s
[ 17/145] cpp-0:15.0.1-0.6.fc42.x86_64  100% | 161.4 MiB/s |  12.9 MiB |  00m00s
[ 18/145] perl-interpreter-4:5.40.1-515 100% |   5.4 MiB/s |  72.2 KiB |  00m00s
[ 19/145] perl-macros-4:5.40.1-515.fc42 100% |   2.0 MiB/s |  12.3 KiB |  00m00s
[ 20/145] perl-Carp-0:1.54-512.fc42.noa 100% |   4.7 MiB/s |  28.9 KiB |  00m00s
[ 21/145] perl-Exporter-0:5.78-512.fc42 100% |   6.1 MiB/s |  31.0 KiB |  00m00s
[ 22/145] perl-libs-4:5.40.1-515.fc42.x 100% | 149.3 MiB/s |   2.2 MiB |  00m00s
[ 23/145] htslib-0:1.15.1-8.fc42.x86_64 100% |  44.6 MiB/s | 502.8 KiB |  00m00s
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[ 62/145] armadillo-0:12.8.1-6.fc42.x86 100% |   4.4 MiB/s |  27.3 KiB |  00m00s
[ 63/145] hdf5-devel-0:1.14.5-2.fc42.x8 100% | 119.1 MiB/s |   1.4 MiB |  00m00s
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[ 65/145] libgfortran-0:15.0.1-0.6.fc42 100% |  65.7 MiB/s | 941.5 KiB |  00m00s
[ 66/145] arpack-0:3.9.1-6.fc42.x86_64  100% |  11.3 MiB/s | 207.8 KiB |  00m00s
[ 67/145] SuperLU-0:7.0.0-2.fc42.x86_64 100% |  26.1 MiB/s | 187.3 KiB |  00m00s
[ 68/145] perl-DynaLoader-0:1.56-515.fc 100% |   3.6 MiB/s |  26.0 KiB |  00m00s
[ 69/145] metis-0:5.1.0.3-7.fc42.x86_64 100% |  55.8 MiB/s | 571.7 KiB |  00m00s
[ 70/145] perl-PathTools-0:3.91-513.fc4 100% |  16.3 MiB/s |  83.2 KiB |  00m00s
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[ 74/145] perl-constant-0:1.33-513.fc42 100% |   1.5 MiB/s |  23.0 KiB |  00m00s
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[ 77/145] perl-Getopt-Std-0:1.14-515.fc 100% |   1.7 MiB/s |  15.7 KiB |  00m00s
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[ 80/145] perl-Storable-1:3.32-512.fc42 100% |   9.7 MiB/s |  99.6 KiB |  00m00s
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[130/145] perl-Pod-Escapes-1:1.07-512.f 100% |   2.8 MiB/s |  19.8 KiB |  00m00s
[131/145] perl-if-0:0.61.000-515.fc42.n 100% |   3.4 MiB/s |  14.0 KiB |  00m00s
[132/145] perl-locale-0:1.12-515.fc42.n 100% |   3.3 MiB/s |  13.6 KiB |  00m00s
[133/145] perl-AutoLoader-0:5.74-515.fc 100% |   5.2 MiB/s |  21.2 KiB |  00m00s
[134/145] perl-IO-Socket-IP-0:0.43-2.fc 100% |  10.3 MiB/s |  42.4 KiB |  00m00s
[135/145] perl-URI-0:5.31-2.fc42.noarch 100% |  31.0 MiB/s | 127.1 KiB |  00m00s
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[141/145] perl-Digest-0:1.20-512.fc42.n 100% |   6.1 MiB/s |  24.9 KiB |  00m00s
[142/145] gcc-plugin-annobin-0:15.0.1-0 100% |   9.3 MiB/s |  38.2 KiB |  00m00s
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[145/145] perl-B-0:1.89-515.fc42.x86_64 100% | 168.4 KiB/s | 177.0 KiB |  00m01s
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[145/145] Total                         100% |  96.9 MiB/s | 168.0 MiB |  00m02s
Running transaction
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Warning: skipped OpenPGP checks for 145 packages from repository: http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch
Complete!
Finish: build setup for mmseq-1.0.11-23.fc42.src.rpm
Start: rpmbuild mmseq-1.0.11-23.fc42.src.rpm
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1738454400
Executing(%mkbuilddir): /bin/sh -e /var/tmp/rpm-tmp.iBHN7K
+ umask 022
+ cd /builddir/build/BUILD/mmseq-1.0.11-build
+ test -d /builddir/build/BUILD/mmseq-1.0.11-build
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/mmseq-1.0.11-build
+ /usr/bin/rm -rf /builddir/build/BUILD/mmseq-1.0.11-build
+ /usr/bin/mkdir -p /builddir/build/BUILD/mmseq-1.0.11-build
+ /usr/bin/mkdir -p /builddir/build/BUILD/mmseq-1.0.11-build/SPECPARTS
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.QdExtb
+ umask 022
+ cd /builddir/build/BUILD/mmseq-1.0.11-build
+ cd /builddir/build/BUILD/mmseq-1.0.11-build
+ rm -rf mmseq-1.0.11
+ /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/1.0.11.zip
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd mmseq-1.0.11
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ echo 'Patch #2 (mmseq-zlib.patch):'
Patch #2 (mmseq-zlib.patch):
+ /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .mmseq-zlib.patch --fuzz=0
patching file src/Makefile
+ rm -f bin/offsetGTF-linux bin/postdiff-linux
+ sed -e s/-lblas/-lflexiblas/g -e s/-llapack/-lflexiblas/g -i src/Makefile
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.bP5uF1
+ umask 022
+ cd /builddir/build/BUILD/mmseq-1.0.11-build
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -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-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 mmseq-1.0.11
+ cd src
+ make -j4 'CXXFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer'
g++ -O3 -c sokal.cc
g++ -fopenmp -O3 -c uh.cpp 
g++ -DVERSION=1.0.11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fopenmp -O3 hitsio.cpp hitsio.hpp -c hitsio.cpp
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  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer    -c -o fasta.o fasta.c
g++ -DVERSION=1.0.11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 offsetGTF.cpp -o ../bin/offsetGTF
offsetGTF.cpp: In function ‘int main(int, char**)’:
offsetGTF.cpp:115:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  115 |       while(gff_ind < gff_positions[chrom].size()) {
      |             ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
offsetGTF.cpp:117:57: warning: comparison of integer expressions of different signedness: ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} and ‘__gnu_cxx::__alloc_traits<std::allocator<int>, int>::value_type’ {aka ‘int’} [-Wsign-compare]
  117 |               pos + tokens[3].size() - tokens[4].size() >= gff_positions[chrom][gff_ind]) {
offsetGTF.cpp:114:11: warning: unused variable ‘curoff’ [-Wunused-variable]
  114 |       int curoff=offset;
      |           ^~~~~~
offsetGTF.cpp:150:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  150 |       while(gff_ind < gff_positions[prevchrom].size()) {
      |             ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
offsetGTF.cpp:163:53: warning: comparison of integer expressions of different signedness: ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} and ‘__gnu_cxx::__alloc_traits<std::allocator<int>, int>::value_type’ {aka ‘int’} [-Wsign-compare]
  163 |           pos + tokens[3].size() - tokens[4].size() >= gff_positions[chrom][gff_ind]) {
offsetGTF.cpp:177:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  177 |     while(gff_ind < gff_positions[chrom].size() && gff_positions[chrom][gff_ind] <= pos) {
      |           ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
offsetGTF.cpp:235:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  235 |     for(int i=5; i < tokens.size(); i++) {
      |                  ~~^~~~~~~~~~~~~~~
offsetGTF.cpp:237:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  237 |       if(i < tokens.size()-1) {
      |          ~~^~~~~~~~~~~~~~~~~
offsetGTF.cpp:108:7: warning: unused variable ‘gff_pos’ [-Wunused-variable]
  108 |   int gff_pos= -1;
      |       ^~~~~~~
g++ -DVERSION=1.0.11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 t2g_hits.cpp -o ../bin/t2g_hits
t2g_hits.cpp: In function ‘int main(int, char**)’:
t2g_hits.cpp:90:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   90 |         for(int i=2; i < tokens.size(); i++) {
      |                      ~~^~~~~~~~~~~~~~~
t2g_hits.cpp:112:13: warning: ignoring return value of ‘_FIter std::unique(_FIter, _FIter) [with _FIter = __gnu_cxx::__normal_iterator<__cxx11::basic_string<char>*, vector<__cxx11::basic_string<char> > >]’, declared with attribute ‘nodiscard’ [-Wunused-result]
  112 |       unique(comb.begin(), comb.end());
      |       ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/15/algorithm:63,
                 from t2g_hits.cpp:27:
/usr/include/c++/15/bits/stl_algo.h:875:5: note: declared here
  875 |     unique(_ForwardIterator __first, _ForwardIterator __last)
      |     ^~~~~~
g++ -DVERSION=1.0.11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fopenmp -O2 bms.cpp bms.hpp -c bms.cpp
hitsio.cpp: In member function ‘void HitsfileWriter::writeHeaderSchema0()’:
hitsio.cpp:163:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  163 |         for(int i = 0; i < transcriptName.size(); i++) {
      |                        ~~^~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp: In member function ‘void HitsfileWriter::writeReadMapRecordSchema0()’:
hitsio.cpp:184:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  184 |         for(int i = 0; i < currentReadTranscripts.size(); i++) {
      |                        ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp: In member function ‘void HitsfileWriter::writeHeaderSchema1()’:
hitsio.cpp:24:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
   24 |         if (VAL > numeric_limits<uint32_t>::max()) { \
      |                 ^
hitsio.cpp:191:9: note: in expansion of macro ‘WRITE_UINT’
  191 |         WRITE_UINT(ofs, hitsfileSchema);
      |         ^~~~~~~~~~
hitsio.cpp:193:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  193 |         for(int i = 0; i < transcriptName.size(); i++) {
      |                        ~~^~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp:24:17: warning: comparison of integer expressions of different signedness: ‘std::map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare]
   24 |         if (VAL > numeric_limits<uint32_t>::max()) { \
hitsio.cpp:196:17: note: in expansion of macro ‘WRITE_UINT’
  196 |                 WRITE_UINT(ofs, transcriptTrueLength[transcriptName[i] ])
      |                 ^~~~~~~~~~
hitsio.cpp: In member function ‘void HitsfileWriter::writeReadMapRecordSchema1()’:
hitsio.cpp:236:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  236 |         for(int i = 0; i < currentReadTranscripts.size(); i++) {
      |                        ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp: In member function ‘void HitsfileReader::readHeaderSchema1(std::vector<std::__cxx11::basic_string<char> >*, std::map<std::__cxx11::basic_string<char>, double>*, std::map<std::__cxx11::basic_string<char>, int>*, std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > >*, std::vector<std::vector<std::__cxx11::basic_string<char> > >*)’:
hitsio.cpp:356:16: warning: unused variable ‘nextStrLen’ [-Wunused-variable]
  356 |         size_t nextStrLen;
      |                ^~~~~~~~~~
hitsio.cpp: In member function ‘bool HitsfileReader::readReadMapRecordTranscriptID(std::string&)’:
hitsio.cpp:447:1: warning: control reaches end of non-void function [-Wreturn-type]
  447 | }
      | ^
g++ -DVERSION=1.0.11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 fasta.o extract_transcripts.cpp -o ../bin/extract_transcripts
bms.cpp: In member function ‘arma::Col<int> BMS::m2v(arma::Mat<double>)’:
bms.cpp:36:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
   36 |   for(int i=0; i < P.n_cols; i++) {
      |                ~~^~~~~~~~~~
bms.cpp:37:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
   37 |     for(int j=0; j < P.n_rows; j++) {
      |                  ~~^~~~~~~~~~
bms.cpp: In member function ‘std::vector<double> BMS::meanvar(arma::Col<double>)’:
bms.cpp:76:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
   76 |   for(int i=0;i < v.n_elem; i++) {
      |               ~~^~~~~~~~~~
bms.cpp: In member function ‘void BMS::print(bool)’:
bms.cpp:93:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
   93 |   for(int feature=0; feature < y->n_rows; feature++) {
      |                      ~~~~~~~~^~~~~~~~~~~
bms.cpp:97:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
   97 |       for(int i=0; i < M.n_cols; i++) {
      |                    ~~^~~~~~~~~~
bms.cpp:102:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  102 |       for(int l=0; l < P[model].n_cols; l++) {
      |                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::printtune(int)’:
bms.cpp:132:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  132 |   for(int feature=0; feature < y->n_rows; feature++) {
      |                      ~~~~~~~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::set_pseudoprior_alpha()’:
bms.cpp:185:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  185 |     for(int j=0; j < y->n_rows; j++) {
      |                  ~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::set_pseudoprior_beta()’:
bms.cpp:253:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  253 |   for(int j=0; j < y->n_rows; j++) {
      |                ~~^~~~~~~~~~~
bms.cpp:255:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  255 |       for(int b=0; b < M.n_cols; b++) {
      |                    ~~^~~~~~~~~~
bms.cpp: In member function ‘void BMS::set_pseudoprior_eta()’:
bms.cpp:332:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  332 |   for(int j=0; j < y->n_rows; j++) {
      |                ~~^~~~~~~~~~~
bms.cpp:334:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  334 |       for(int c=0; c < P[model].n_cols; c++) {
      |                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::set_pseudoprior_sigmasq()’:
bms.cpp:415:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  415 |   for(int j=0; j < y->n_rows; j++) {
      |                ~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::set_pseudoprior_lambda()’:
bms.cpp:504:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  504 |   for(int j=0; j < y->n_rows; j++) {
      |                ~~^~~~~~~~~~~
bms.cpp:506:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  506 |       for(int l=0; l < P[model].n_cols; l++) {
      |                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::set_pseudoprior_rho()’:
bms.cpp:559:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  559 |     for(int j=0; j < y->n_rows; j++) {
      |                  ~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::copy_pseudo()’:
bms.cpp:582:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  582 |   for(int j=0; j < y->n_rows; j++) {
      |                ~~^~~~~~~~~~~
bms.cpp:585:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  585 |     for(int c=0; c < P[0].n_cols; c++) {
      |                  ~~^~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::update_alpha(int, int, bool)’:
bms.cpp:603:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  603 |     for(int j=0; j < y->n_cols; j++) {
      |                  ~~^~~~~~~~~~~
bms.cpp:610:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  610 |     for(int i=0; i < y->n_cols; i++) {
      |                  ~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::update_beta(int, int, bool)’:
bms.cpp:631:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  631 |     for(int j=0; j < y->n_cols; j++) {
      |                  ~~^~~~~~~~~~~
bms.cpp:638:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  638 |     for(int i=0; i < M.n_cols; i++) {
      |                  ~~^~~~~~~~~~
bms.cpp:646:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  646 |     for(int i=0; i < M.n_cols; i++) {
      |                  ~~^~~~~~~~~~
bms.cpp:651:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  651 |     for(int i=0; i < M.n_cols; i++) {
      |                  ~~^~~~~~~~~~
bms.cpp: In member function ‘void BMS::update_eta(int, int, bool)’:
bms.cpp:663:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  663 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:666:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  666 |       for(int i=0; i < y->n_cols; i++) {
      |                    ~~^~~~~~~~~~~
bms.cpp:673:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  673 |       for(int i=0; i < y->n_cols; i++) {
      |                    ~~^~~~~~~~~~~
bms.cpp:681:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  681 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:686:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  686 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::update_lambda(int, int, bool)’:
bms.cpp:699:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  699 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:704:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  704 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:711:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  711 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::update_sigmasq(int, int, bool, bool)’:
bms.cpp:729:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  729 |     for(int i=0; i < y->n_cols; i++) {
      |                  ~~^~~~~~~~~~~
bms.cpp:740:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  740 |     for(int i=0; i < y->n_cols; i++) {
      |                  ~~^~~~~~~~~~~
bms.cpp:751:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  751 |         for(int i=0; i < y->n_cols; i++) {
      |                      ~~^~~~~~~~~~~
bms.cpp:763:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  763 |         for(int i=0; i < y->n_cols; i++) {
      |                      ~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::update_sigmasq_RW(int, int, bool, bool)’:
bms.cpp:877:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  877 |     for(int i=0; i < y->n_cols; i++) {
      |                  ~~^~~~~~~~~~~
bms.cpp: In member function ‘double BMS::log_target_posterior(int, int)’:
bms.cpp:931:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  931 |   for(int i=0; i < y->n_cols; i++) {
      |                ~~^~~~~~~~~~~
bms.cpp:940:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  940 |     for(int j=0; j < M.n_cols; j++) {
      |                  ~~^~~~~~~~~~
bms.cpp:947:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  947 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘double BMS::log_target_pseudo(int, int)’:
bms.cpp:968:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  968 |     for(int l=0; l < M.n_cols; l++) {
      |                  ~~^~~~~~~~~~
bms.cpp:974:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  974 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::print_pseudo()’:
bms.cpp:1086:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1086 |     for(int l=0; l < M.n_cols; l++) {
      |                  ~~^~~~~~~~~~
bms.cpp:1089:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1089 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:1100:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1100 |   for(int i=0; i < y->n_rows; i++) {
      |                ~~^~~~~~~~~~~
bms.cpp:1103:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1103 |       for(int l=0; l < M.n_cols; l++) {
      |                    ~~^~~~~~~~~~
bms.cpp:1106:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1106 |       for(int l=0; l < P[model].n_cols; l++) {
      |                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In constructor ‘BMS::BMS(const arma::Mat<double>*, const arma::Mat<double>&, arma::Mat<double>, arma::Mat<double>, arma::Mat<double>, arma::Mat<int>, double, double, double, std::string, gsl_rng**, int, bool)’:
bms.cpp:1188:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1188 |     for(int i=0; i < y->n_cols; i++) {
      |                  ~~^~~~~~~~~~~
bms.cpp:1192:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int, std::allocator<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1192 |         if(C(i,model)+1 > _n.size()) {
      |            ~~~~~~~~~~~~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::initialise_streams(std::string)’:
bms.cpp:1348:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1348 |   for(int i=0; i < M.n_cols; i++) {
      |                ~~^~~~~~~~~~
bms.cpp:1354:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1354 |   for(int i=0; i < M.n_cols; i++) {
      |                ~~^~~~~~~~~~
bms.cpp:1360:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1360 |   for(int i=0; i < P[0].n_cols; i++) {
      |                ~~^~~~~~~~~~~~~
bms.cpp:1366:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1366 |   for(int i=0; i < P[1].n_cols; i++) {
      |                ~~^~~~~~~~~~~~~
bms.cpp:1372:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1372 |   for(int i=0; i < P[0].n_cols; i++) {
      |                ~~^~~~~~~~~~~~~
bms.cpp:1378:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1378 |   for(int i=0; i < P[1].n_cols; i++) {
      |                ~~^~~~~~~~~~~~~
extract_transcripts.cpp: In function ‘int main(int, char**)’:
extract_transcripts.cpp:122:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  122 |       for(int i=0; i < tokens2.size(); i++) {
      |                    ~~^~~~~~~~~~~~~~~~
extract_transcripts.cpp:169:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  169 |     for(int i=0; i < tokens.size(); i++) {
      |                  ~~^~~~~~~~~~~~~~~
extract_transcripts.cpp:195:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  195 |       for(int i=0; i < it->starts()->size(); i++) {
      |                    ~~^~~~~~~~~~~~~~~~~~~~~~
extract_transcripts.cpp:203:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  203 |       while(faline < stitch.size()) {
      |             ~~~~~~~^~~~~~~~~~~~~~~
extract_transcripts.cpp:108:7: warning: unused variable ‘line’ [-Wunused-variable]
  108 |   int line=0;
      |       ^~~~
g++ -DVERSION=1.0.11 -DARMA_64BIT_WORD -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fopenmp -O3 uh.o sokal.o mmcollapse.cpp -o ../bin/mmcollapse -lgsl -lgslcblas -lboost_regex -lhts -lboost_iostreams -lflexiblas -lflexiblas -Wl,--as-needed -lz -lgfortran
mmcollapse.cpp: In function ‘void get_unidentifiable_transcripts(std::string, std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >&, std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >&, std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >&, std::map<std::__cxx11::basic_string<char>, std::map<std::__cxx11::basic_string<char>, double> >&, std::map<std::__cxx11::basic_string<char>, std::map<std::__cxx11::basic_string<char>, double> >&, std::map<std::__cxx11::basic_string<char>, std::map<std::__cxx11::basic_string<char>, double> >&, std::map<std::__cxx11::basic_string<char>, int>&, std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >&, std::map<std::__cxx11::basic_string<char>, bool>&)’:
mmcollapse.cpp:158:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  158 |   for(int i=0; i < tokens.size(); i++) {
      |                ~~^~~~~~~~~~~~~~~
mmcollapse.cpp:213:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  213 |     for(int i=0; i < tokens2.size(); i++) isIdent[tokens2[i]]=1;
      |                  ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:259:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  259 |   for(int i=0; i < tokens.size(); i++) {
      |                ~~^~~~~~~~~~~~~~~
mmcollapse.cpp: In function ‘void collapse(arma::cube&, std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >&, std::map<std::__cxx11::basic_string<char>, int>&, std::vector<int, std::allocator<int> >)’:
mmcollapse.cpp:400:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  400 |   for(int s=0; s < R.n_slices; s++) {
      |                ~~^~~~~~~~~~~~
mmcollapse.cpp:401:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  401 |     for(int t=0; t < candidates.size(); t++) {
      |                  ~~^~~~~~~~~~~~~~~~~~~
mmcollapse.cpp:402:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int, std::allocator<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  402 |       for(int j=1; j < indexes.size(); j++) {
      |                    ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:414:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int, std::allocator<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  414 |     for(int j=1; j < indexes.size(); j++) {
      |                  ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:417:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  417 |       for(int i=0; i < R.n_cols; i++) {
      |                    ~~^~~~~~~~~~
mmcollapse.cpp:426:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int, std::allocator<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  426 |   for(int i=0; i < indexes.size(); i++) {
      |                ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:431:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  431 |   for(int i=1; i < tset.size(); i++) {
      |                ~~^~~~~~~~~~~~~
mmcollapse.cpp:437:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int, std::allocator<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  437 |   for(int i=1; i < indexes.size(); i++) {
      |                ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp: In function ‘std::map<int, int> join_traces(arma::mat&, std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >&, std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >)’:
mmcollapse.cpp:445:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  445 |   for(int t=0; t < allnames.size(); t++) tmap[allnames[t]]=t;
      |                ~~^~~~~~~~~~~~~~~~~
mmcollapse.cpp:452:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  452 |   for(int c=0; c < candidates.size(); c++) {
      |                ~~^~~~~~~~~~~~~~~~~~~
mmcollapse.cpp:456:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  456 |     for(int t=0; t < tokens.size(); t++) {
      |                  ~~^~~~~~~~~~~~~~~
mmcollapse.cpp:464:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int, std::allocator<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  464 |     for(int t=1; t < indexes.size(); t++) {
      |                  ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:469:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int, std::allocator<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  469 |     for(int t=1; t < indexes.size(); t++) {
      |                  ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:476:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int, std::allocator<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  476 |   for(int i=0; i < toshed.size(); i++) {
      |                ~~^~~~~~~~~~~~~~~
mmcollapse.cpp: In function ‘void mean_corrs(const arma::cube&, const arma::umat&, arma::mat&, arma::mat&, std::vector<int, std::allocator<int> >, std::vector<int, std::allocator<int> >, double)’:
mmcollapse.cpp:486:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  486 |     for(int v= 0; v < R.n_rows; v++) {
      |                   ~~^~~~~~~~~~
mmcollapse.cpp:492:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘arma::uword’ {aka ‘long long unsigned int’} [-Wsign-compare]
  492 |       for(int i=0; i < u.size(); i++) {
      |                    ~~^~~~~~~~~~
mmcollapse.cpp: In function ‘void get_corrs(arma::cube&, arma::mat&, const std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >&, std::map<std::__cxx11::basic_string<char>, int>&)’:
mmcollapse.cpp:519:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  519 |   for(int s=0; s < basenames.size(); s++) {
      |                ~~^~~~~~~~~~~~~~~~~~
mmcollapse.cpp:543:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  543 |         for(int t=0; t < tokens.size(); t++) {
      |                      ~~^~~~~~~~~~~~~~~
mmcollapse.cpp: In function ‘int main(int, char**)’:
mmcollapse.cpp:632:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  632 |   for(int i=1; i < basenames.size(); i++) {
      |                ~~^~~~~~~~~~~~~~~~~~
mmcollapse.cpp:691:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  691 |   for(int s=0; s < basenames.size(); s++) {
      |                ~~^~~~~~~~~~~~~~~~~~
mmcollapse.cpp:707:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  707 |   for(int i=0; i < candidates.size(); i++) ts.push_back(i);
      |                ~~^~~~~~~~~~~~~~~~~~~
mmcollapse.cpp:732:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  732 |     for(int i=0 ;i < maxcorrs.size(); i++) {
      |                  ~~^~~~~~~~~~~~~~~~~
mmcollapse.cpp:738:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  738 |     for(int i=0 ;i < mincorrs.size(); i++) {
      |                  ~~^~~~~~~~~~~~~~~~~
mmcollapse.cpp:802:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  802 |         for(int i=0 ;i < maxcorrs.size(); i++) {
      |                      ~~^~~~~~~~~~~~~~~~~
mmcollapse.cpp:808:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  808 |         for(int i=0 ;i < mincorrs.size(); i++) {
      |                      ~~^~~~~~~~~~~~~~~~~
mmcollapse.cpp:827:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  827 |   for(int s=0; s < basenames.size(); s++) {
      |                ~~^~~~~~~~~~~~~~~~~~
mmcollapse.cpp:852:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  852 |       for(int t=0; t < tokens.size(); t++) {
      |                    ~~^~~~~~~~~~~~~~~
mmcollapse.cpp:882:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  882 |       for(int t=0; t < tokens2.size(); t++) {
      |                    ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:934:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  934 |     for(int t=0; t < M.n_cols; t++) {
      |                  ~~^~~~~~~~~~
mmcollapse.cpp:963:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  963 |     for(int i=1; i < tokens2.size(); i++) {
      |                  ~~^~~~~~~~~~~~~~~~
mmcollapse.cpp:976:21: warning: comparison of integer expressions of different signedness: ‘boost::numeric::ublas::compressed_matrix<bool>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  976 |       if(MM.size1() < i+1 ) factor1=2;
      |          ~~~~~~~~~~~^~~~~
mmcollapse.cpp:977:21: warning: comparison of integer expressions of different signedness: ‘boost::numeric::ublas::compressed_matrix<bool>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  977 |       if(MM.size2() < j+1 ) factor2=2;
      |          ~~~~~~~~~~~^~~~~
mmcollapse.cpp:1010:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1010 |     for(int t=0; t < ids.size(); t++) {
      |                  ~~^~~~~~~~~~~~
mmcollapse.cpp:1083:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1083 |     for(int i=0; i < ids.size(); i++) {
      |                  ~~^~~~~~~~~~~~
mmcollapse.cpp:1092:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1092 |     for(int v = 0; v < M.n_cols; v++) {
      |                    ~~^~~~~~~~~~
mmcollapse.cpp:840:9: warning: unused variable ‘isident’ [-Wunused-variable]
  840 |     int isident=0;
      |         ^~~~~~~
hitsio.cpp: In member function ‘void HitsfileWriter::writeHeaderSchema0()’:
hitsio.cpp:163:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  163 |         for(int i = 0; i < transcriptName.size(); i++) {
      |                        ~~^~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp: In member function ‘void HitsfileWriter::writeReadMapRecordSchema0()’:
hitsio.cpp:184:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  184 |         for(int i = 0; i < currentReadTranscripts.size(); i++) {
      |                        ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp: In member function ‘void HitsfileWriter::writeHeaderSchema1()’:
hitsio.cpp:24:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
   24 |         if (VAL > numeric_limits<uint32_t>::max()) { \
      |                 ^
hitsio.cpp:191:9: note: in expansion of macro ‘WRITE_UINT’
  191 |         WRITE_UINT(ofs, hitsfileSchema);
      |         ^~~~~~~~~~
hitsio.cpp:193:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  193 |         for(int i = 0; i < transcriptName.size(); i++) {
      |                        ~~^~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp:24:17: warning: comparison of integer expressions of different signedness: ‘std::map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare]
   24 |         if (VAL > numeric_limits<uint32_t>::max()) { \
hitsio.cpp:196:17: note: in expansion of macro ‘WRITE_UINT’
  196 |                 WRITE_UINT(ofs, transcriptTrueLength[transcriptName[i] ])
      |                 ^~~~~~~~~~
hitsio.cpp: In member function ‘void HitsfileWriter::writeReadMapRecordSchema1()’:
hitsio.cpp:236:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  236 |         for(int i = 0; i < currentReadTranscripts.size(); i++) {
      |                        ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
hitsio.cpp: In member function ‘void HitsfileReader::readHeaderSchema1(std::vector<std::__cxx11::basic_string<char> >*, std::map<std::__cxx11::basic_string<char>, double>*, std::map<std::__cxx11::basic_string<char>, int>*, std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > >*, std::vector<std::vector<std::__cxx11::basic_string<char> > >*)’:
hitsio.cpp:356:16: warning: unused variable ‘nextStrLen’ [-Wunused-variable]
  356 |         size_t nextStrLen;
      |                ^~~~~~~~~~
hitsio.cpp: In member function ‘bool HitsfileReader::readReadMapRecordTranscriptID(std::string&)’:
hitsio.cpp:447:1: warning: control reaches end of non-void function [-Wreturn-type]
  447 | }
      | ^
g++ -DVERSION=1.0.11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fopenmp -O3 sokal.o uh.o hitsio.o mmseq.cpp -o ../bin/mmseq -lgsl -lgslcblas -lboost_regex -lhts -lboost_iostreams -lflexiblas -lflexiblas -Wl,--as-needed -lz -lgfortran
g++ -DVERSION=1.0.11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fopenmp -O3 fasta.o hitsio.o bam2hits.cpp -o ../bin/bam2hits -lgsl -lgslcblas -lboost_regex -lhts -lboost_iostreams -lflexiblas -lflexiblas -Wl,--as-needed -lz -lgfortran
mmseq.cpp: In function ‘std::vector<double> meanvar(std::vector<double>, double, double)’:
mmseq.cpp:130:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  130 |   for(int i=0;i < v.size(); i++) {
      |               ~~^~~~~~~~~~
mmseq.cpp: In function ‘int main(int, char**)’:
mmseq.cpp:244:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  244 |       for(int i=0; i < tokens.size(); i++) {
      |                    ~~^~~~~~~~~~~~~~~
mmseq.cpp:423:20: warning: comparison of integer expressions of different signedness: ‘boost::numeric::ublas::compressed_matrix<bool>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  423 |       if(M.size1() < m ) factor1=2;
      |          ~~~~~~~~~~^~~
mmseq.cpp:424:20: warning: comparison of integer expressions of different signedness: ‘boost::numeric::ublas::compressed_matrix<bool>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  424 |       if(M.size2() < n ) factor2=2;
      |          ~~~~~~~~~~^~~
mmseq.cpp:594:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  594 |   for(unsigned t=0; t < n; t++)  {
      |                     ~~^~~
mmseq.cpp:736:25: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  736 |     for(unsigned t=0; t < n; t++)
      |                       ~~^~~
mmseq.cpp:765:27: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  765 |       for(unsigned t=0; t < n; t++)
      |                         ~~^~~
mmseq.cpp:774:11: warning: unused variable ‘threadid’ [-Wunused-variable]
  774 |       int threadid=OMP_GET_THREAD_NUM;
      |           ^~~~~~~~
mmseq.cpp:829:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  829 |   for(unsigned t=0; t < n; t++)
      |                     ~~^~~
mmseq.cpp:912:27: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  912 |       for(unsigned t=0; t < n; t++) {
      |                         ~~^~~
mmseq.cpp:940:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  940 |   for(int i=0; i < identical_transcripts.size() * trace_length; i++) mu_trace_identical[i]=0;
      |                ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:961:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  961 |   for(int i=0; i < gene2transcripts.size() * trace_length; i++) mu_trace_gene[i]=0;
      |                ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1098:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
 1098 |   for(unsigned t=0; t < n; t++) gofs << indexSid[t] << " ";
      |                     ~~^~~
mmseq.cpp:1112:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1112 |   for(int i=0; i < percentiles.size(); i++) {
      |                ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1136:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1136 |     for(int j=0; j < percentiles.size(); j++) {
      |                  ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1144:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1144 |     for(int j=0; j < percentiles.size(); j++) {
      |                  ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1149:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1149 |   for(int i=0;i < identical_transcripts.size(); i++) {
      |               ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1156:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1156 |     for(int j=0; j < percentiles.size(); j++) {
      |                  ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1161:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1161 |   for(int i=0;i < gene2transcripts.size(); i++) {
      |               ~~^~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1168:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1168 |     for(int j=0; j < percentiles.size(); j++) {
      |                  ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1179:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1179 |     for(int j=0; j < percentiles.size(); j++) {
      |                  ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1189:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1189 |     for(int j=0; j < percentiles.size(); j++) {
      |                  ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1208:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1208 |     for(int t=0; t < identical_transcripts.size() ; t++) {
      |                  ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1212:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1212 |     for(int t=0; t < gene2transcripts.size(); t++){
      |                  ~~^~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1226:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1226 |   for(int i=0; i < identical_transcripts.size() ; i++) meanmu_identical[i] /= trace_length;
      |                ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1227:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1227 |   for(int i=0; i < gene2transcripts.size(); i++) meanmu_gene[i]/= trace_length;
      |                ~~^~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1330:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1330 |   for(int t=0; t < identical_transcripts.size(); t++) {
      |                ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1349:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1349 |   for(int g=0; g < gene2transcripts.size(); g++) {
      |                ~~^~~~~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1473:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1473 |   for(int i=0; i < percentiles.size(); i++) {
      |                ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1475:9: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1475 |     if(i==percentiles.size()-1) {
      |        ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1482:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1482 |   for(int i=0; i < percentiles.size(); i++) {
      |                ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1484:9: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1484 |     if(i==percentiles.size()-1) {
      |        ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1506:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1506 |       for(int i=0; i < percentiles.size(); i++) {
      |                    ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1508:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1508 |         if(i==percentiles.size()-1) {
      |            ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1514:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1514 |       for(int i=0; i < percentiles.size(); i++) {
      |                    ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1516:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1516 |         if(i==percentiles.size()-1) {
      |            ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1536:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1536 |       for(int i=0; i < percentiles.size(); i++) {
      |                    ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1538:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1538 |         if(i==percentiles.size()-1) {
      |            ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1544:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1544 |       for(int i=0; i < percentiles.size(); i++) {
      |                    ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1546:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1546 |         if(i==percentiles.size()-1) {
      |            ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1560:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1560 |   for(int i=0; i < percentiles.size(); i++) {
      |                ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1562:9: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1562 |     if(i==percentiles.size()-1) {
      |        ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1582:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1582 |         for(int i=0; i < percentiles.size(); i++) {
      |                      ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1584:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1584 |           if(i==percentiles.size()-1) {
      |              ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1599:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1599 |         for(int i=0; i < percentiles.size(); i++) {
      |                      ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1601:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1601 |           if(i==percentiles.size()-1) {
      |              ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1619:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1619 |   for(int i=0; i < percentiles.size(); i++) {
      |                ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1621:9: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1621 |     if(i==percentiles.size()-1) {
      |        ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1644:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1644 |         for(int i=0; i < percentiles.size(); i++) {
      |                      ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1646:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1646 |           if(i==percentiles.size()-1) {
      |              ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1656:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1656 |         for(int i=0; i < percentiles.size(); i++) {
      |                      ~~^~~~~~~~~~~~~~~~~~~~
mmseq.cpp:1658:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1658 |           if(i==percentiles.size()-1) {
      |              ~^~~~~~~~~~~~~~~~~~~~~~
mmseq.cpp:308:8: warning: unused variable ‘buf16384’ [-Wunused-variable]
  308 |   char buf16384[16384];
      |        ^~~~~~~~
mmseq.cpp:391:8: warning: variable ‘doublehit’ set but not used [-Wunused-but-set-variable]
  391 |   bool doublehit;
      |        ^~~~~~~~~
bam2hits.cpp: In function ‘void outputMergeHeaders(std::vector<FastaRecord>&, char, const char*, bool, HitsfileWriter&)’:
bam2hits.cpp:109:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<FastaRecord>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  109 |   for(int i=0; i < sortedfastas.size()-1; i++) {
      |                ~~^~~~~~~~~~~~~~~~~~~~~~~
bam2hits.cpp:119:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<FastaRecord>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  119 |       for(int j=0; j < curSet.size()-1; j++) {
      |                    ~~^~~~~~~~~~~~~~~~~
bam2hits.cpp:137:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<FastaRecord>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  137 |   for(int j=0; j < curSet.size()-1; j++) {
      |                ~~^~~~~~~~~~~~~~~~~
bam2hits.cpp: In function ‘std::vector<Alignment> repetitiveTranscriptFilter(std::vector<Alignment>&, int)’:
bam2hits.cpp:218:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<Alignment>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  218 |   for(int j=0; j < alns.size(); j++) {
      |                ~~^~~~~~~~~~~~~
bam2hits.cpp:219:10: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  219 |     if(i < torem.size() && j==torem[i]) {
      |        ~~^~~~~~~~~~~~~~
bam2hits.cpp: In function ‘int main(int, char**)’:
bam2hits.cpp:518:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  518 |         if(_B != tg[0].size()-2) {
      |            ~~~^~~~~~~~~~~~~~~~~
bam2hits.cpp:520:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  520 |           if(_A == tg[0].size()-2) {
      |              ~~~^~~~~~~~~~~~~~~~~
bam2hits.cpp:522:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  522 |             if(_A != tg[1].size()-2) {
      |                ~~~^~~~~~~~~~~~~~~~~
bam2hits.cpp:558:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  558 |       for(int i=1; i < tokens2.size(); i++) {
      |                    ~~^~~~~~~~~~~~~~~~
bam2hits.cpp:609:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<FastaRecord>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  609 |     for(int i=0; i < fastas.size(); i++) {
      |                  ~~^~~~~~~~~~~~~~~
bam2hits.cpp:645:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<FastaRecord>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  645 |     for(int i=0;i < fastas.size(); i++) transcriptCounts[i] /= (double)fastas[i].seq().size();
      |                 ~~^~~~~~~~~~~~~~~
bam2hits.cpp:659:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<FastaRecord>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  659 |     for(int i=0; i < fastas.size(); i++) {
      |                  ~~^~~~~~~~~~~~~~~
bam2hits.cpp:662:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  662 |         for(int j =0; j < fastas[i].seq().size(); j++) {
      |                       ~~^~~~~~~~~~~~~~~~~~~~~~~~
bam2hits.cpp:663:44: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  663 |           int tag = (j <= MSEQ_BEFORE || j >= fastas[i].seq().size()-MSEQ_AFTER) ? -2 : 0;
      |                                          ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
bam2hits.cpp:791:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  791 |       for(int j=MSEQ_BEFORE + 1; j <= fastas[i].seq().length()-MSEQ_AFTER; j++) {
      |                                  ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
bam2hits.cpp:920:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  920 |     for(int j=1; j < frequencies.size()-WINDOWFORISIZEMODE + 1; j++) {
      |                  ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
bam2hits.cpp:948:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  948 |     for(int i=0; i < testIsizes.size(); i++) {
      |                  ~~^~~~~~~~~~~~~~~~~~~
bam2hits.cpp:959:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  959 |     for(int i=0; i < heights.size(); i++) {
      |                  ~~^~~~~~~~~~~~~~~~
bam2hits.cpp:997:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  997 |       for(int fl=1; fl <= (it->seq()).size(); fl++) {
      |                     ~~~^~~~~~~~~~~~~~~~~~~~~
bam2hits.cpp:1091:56: warning: comparing the result of pointer addition ‘(bam_aux_get(((const bam1_t*)line), ((const char*)"NM")) + ((sizetype)ait.__gnu_cxx::__normal_iterator<Alignment*, std::vector<Alignment> >::operator->()->Alignment::NM()))’ and NULL [-Waddress]
 1091 |             ait->NM(ait->NM() + bam_aux_get(line,"NM") == NULL ? 0 : bam_aux2i(bam_aux_get(line,"NM")));
      |                                                        ^
bms.cpp: In member function ‘arma::Col<int> BMS::m2v(arma::Mat<double>)’:
bms.cpp:36:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
   36 |   for(int i=0; i < P.n_cols; i++) {
      |                ~~^~~~~~~~~~
bms.cpp:37:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
   37 |     for(int j=0; j < P.n_rows; j++) {
      |                  ~~^~~~~~~~~~
bms.cpp: In member function ‘std::vector<double> BMS::meanvar(arma::Col<double>)’:
bms.cpp:76:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
   76 |   for(int i=0;i < v.n_elem; i++) {
      |               ~~^~~~~~~~~~
bms.cpp: In member function ‘void BMS::print(bool)’:
bms.cpp:93:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
   93 |   for(int feature=0; feature < y->n_rows; feature++) {
      |                      ~~~~~~~~^~~~~~~~~~~
bms.cpp:97:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
   97 |       for(int i=0; i < M.n_cols; i++) {
      |                    ~~^~~~~~~~~~
bms.cpp:102:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  102 |       for(int l=0; l < P[model].n_cols; l++) {
      |                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::printtune(int)’:
bms.cpp:132:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  132 |   for(int feature=0; feature < y->n_rows; feature++) {
      |                      ~~~~~~~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::set_pseudoprior_alpha()’:
bms.cpp:185:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  185 |     for(int j=0; j < y->n_rows; j++) {
      |                  ~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::set_pseudoprior_beta()’:
bms.cpp:253:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  253 |   for(int j=0; j < y->n_rows; j++) {
      |                ~~^~~~~~~~~~~
bms.cpp:255:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  255 |       for(int b=0; b < M.n_cols; b++) {
      |                    ~~^~~~~~~~~~
bms.cpp: In member function ‘void BMS::set_pseudoprior_eta()’:
bms.cpp:332:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  332 |   for(int j=0; j < y->n_rows; j++) {
      |                ~~^~~~~~~~~~~
bms.cpp:334:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  334 |       for(int c=0; c < P[model].n_cols; c++) {
      |                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::set_pseudoprior_sigmasq()’:
bms.cpp:415:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  415 |   for(int j=0; j < y->n_rows; j++) {
      |                ~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::set_pseudoprior_lambda()’:
bms.cpp:504:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  504 |   for(int j=0; j < y->n_rows; j++) {
      |                ~~^~~~~~~~~~~
bms.cpp:506:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  506 |       for(int l=0; l < P[model].n_cols; l++) {
      |                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::set_pseudoprior_rho()’:
bms.cpp:559:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  559 |     for(int j=0; j < y->n_rows; j++) {
      |                  ~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::copy_pseudo()’:
bms.cpp:582:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  582 |   for(int j=0; j < y->n_rows; j++) {
      |                ~~^~~~~~~~~~~
bms.cpp:585:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  585 |     for(int c=0; c < P[0].n_cols; c++) {
      |                  ~~^~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::update_alpha(int, int, bool)’:
bms.cpp:603:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  603 |     for(int j=0; j < y->n_cols; j++) {
      |                  ~~^~~~~~~~~~~
bms.cpp:610:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  610 |     for(int i=0; i < y->n_cols; i++) {
      |                  ~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::update_beta(int, int, bool)’:
bms.cpp:631:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  631 |     for(int j=0; j < y->n_cols; j++) {
      |                  ~~^~~~~~~~~~~
bms.cpp:638:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  638 |     for(int i=0; i < M.n_cols; i++) {
      |                  ~~^~~~~~~~~~
bms.cpp:646:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  646 |     for(int i=0; i < M.n_cols; i++) {
      |                  ~~^~~~~~~~~~
bms.cpp:651:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  651 |     for(int i=0; i < M.n_cols; i++) {
      |                  ~~^~~~~~~~~~
bms.cpp: In member function ‘void BMS::update_eta(int, int, bool)’:
bms.cpp:663:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  663 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:666:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  666 |       for(int i=0; i < y->n_cols; i++) {
      |                    ~~^~~~~~~~~~~
bms.cpp:673:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  673 |       for(int i=0; i < y->n_cols; i++) {
      |                    ~~^~~~~~~~~~~
bms.cpp:681:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  681 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:686:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  686 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::update_lambda(int, int, bool)’:
bms.cpp:699:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  699 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:704:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  704 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:711:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  711 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::update_sigmasq(int, int, bool, bool)’:
bms.cpp:729:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  729 |     for(int i=0; i < y->n_cols; i++) {
      |                  ~~^~~~~~~~~~~
bms.cpp:740:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  740 |     for(int i=0; i < y->n_cols; i++) {
      |                  ~~^~~~~~~~~~~
bms.cpp:751:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  751 |         for(int i=0; i < y->n_cols; i++) {
      |                      ~~^~~~~~~~~~~
bms.cpp:763:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  763 |         for(int i=0; i < y->n_cols; i++) {
      |                      ~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::update_sigmasq_RW(int, int, bool, bool)’:
bms.cpp:877:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  877 |     for(int i=0; i < y->n_cols; i++) {
      |                  ~~^~~~~~~~~~~
bms.cpp: In member function ‘double BMS::log_target_posterior(int, int)’:
bms.cpp:931:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  931 |   for(int i=0; i < y->n_cols; i++) {
      |                ~~^~~~~~~~~~~
bms.cpp:940:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  940 |     for(int j=0; j < M.n_cols; j++) {
      |                  ~~^~~~~~~~~~
bms.cpp:947:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  947 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘double BMS::log_target_pseudo(int, int)’:
bms.cpp:968:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  968 |     for(int l=0; l < M.n_cols; l++) {
      |                  ~~^~~~~~~~~~
bms.cpp:974:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  974 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘void BMS::print_pseudo()’:
bms.cpp:1086:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1086 |     for(int l=0; l < M.n_cols; l++) {
      |                  ~~^~~~~~~~~~
bms.cpp:1089:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1089 |     for(int l=0; l < P[model].n_cols; l++) {
      |                  ~~^~~~~~~~~~~~~~~~~
bms.cpp:1100:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1100 |   for(int i=0; i < y->n_rows; i++) {
      |                ~~^~~~~~~~~~~
bms.cpp:1103:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1103 |       for(int l=0; l < M.n_cols; l++) {
      |                    ~~^~~~~~~~~~
bms.cpp:1106:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1106 |       for(int l=0; l < P[model].n_cols; l++) {
      |                    ~~^~~~~~~~~~~~~~~~~
bms.cpp: In constructor ‘BMS::BMS(const arma::Mat<double>*, const arma::Mat<double>&, arma::Mat<double>, arma::Mat<double>, arma::Mat<double>, arma::Mat<int>, double, double, double, std::string, gsl_rng**, int, bool)’:
bms.cpp:1188:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1188 |     for(int i=0; i < y->n_cols; i++) {
      |                  ~~^~~~~~~~~~~
bms.cpp:1192:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int, std::allocator<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1192 |         if(C(i,model)+1 > _n.size()) {
      |            ~~~~~~~~~~~~~^~~~~~~~~~~
bms.cpp: In member function ‘void BMS::initialise_streams(std::string)’:
bms.cpp:1348:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1348 |   for(int i=0; i < M.n_cols; i++) {
      |                ~~^~~~~~~~~~
bms.cpp:1354:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1354 |   for(int i=0; i < M.n_cols; i++) {
      |                ~~^~~~~~~~~~
bms.cpp:1360:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1360 |   for(int i=0; i < P[0].n_cols; i++) {
      |                ~~^~~~~~~~~~~~~
bms.cpp:1366:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1366 |   for(int i=0; i < P[1].n_cols; i++) {
      |                ~~^~~~~~~~~~~~~
bms.cpp:1372:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1372 |   for(int i=0; i < P[0].n_cols; i++) {
      |                ~~^~~~~~~~~~~~~
bms.cpp:1378:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
 1378 |   for(int i=0; i < P[1].n_cols; i++) {
      |                ~~^~~~~~~~~~~~~
g++ -DVERSION=1.0.11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fopenmp -O3 hitsio.o hitstools.cpp -o ../bin/hitstools -lgsl -lgslcblas -lboost_regex -lhts -lboost_iostreams -lflexiblas -lflexiblas -Wl,--as-needed -lz -lgfortran
hitstools.cpp: In function ‘void convert(char*, std::string)’:
hitstools.cpp:51:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   51 |         for(int i = 0; i < transcriptName.size(); i++) {
      |                        ~~^~~~~~~~~~~~~~~~~~~~~~~
hitstools.cpp: In function ‘int main(int, char**)’:
hitstools.cpp:96:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   96 |                 for(int i = 0; i < transcriptName.size(); i++) {
      |                                ~~^~~~~~~~~~~~~~~~~~~~~~~
hitstools.cpp:136:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  136 |     for(int i = 0; i < transcriptName.size(); i++) {
      |                    ~~^~~~~~~~~~~~~~~~~~~~~~~
g++ -DVERSION=1.0.11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fopenmp -O2 bms.o mmdiff.cpp -o ../bin/mmdiff -lgsl -lgslcblas -lboost_regex -lhts -lboost_iostreams -lflexiblas -lflexiblas -Wl,--as-needed -lz -lgfortran
mmdiff.cpp: In function ‘void parse_mmseq(std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >, std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >&, arma::Mat<double>&, arma::Mat<double>&, arma::Mat<double>&, int, int, double, bool)’:
mmdiff.cpp:100:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  100 |   for(int i=0; i < filenames.size(); i++) {
      |                ~~^~~~~~~~~~~~~~~~~~
mmdiff.cpp:111:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  111 |     for(int j=0; j < tokens.size(); j++) {
      |                  ~~^~~~~~~~~~~~~~~
mmdiff.cpp:138:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  138 |       if(k + 1 > features.size()) {
      |          ~~~~~~^~~~~~~~~~~~~~~~~
mmdiff.cpp:147:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  147 |       if(k+1 > y.n_rows) {
      |          ~~~~^~~~~~~~~~
mmdiff.cpp:152:20: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses]
  152 |       if(!useprops && tokens[lmg_ind]=="NA" || useprops && tokens[mp_ind]=="NA") {
      |          ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:173:62: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  173 |   if(range_start >=0 && range_end > range_start && range_end < y.n_rows) {
      |                                                    ~~~~~~~~~~^~~~~~~~~~
mmdiff.cpp:94:46: warning: variable ‘mcse_ind’ set but not used [-Wunused-but-set-variable]
   94 |   int feature_ind=-1, lmg_ind=-1, sd_ind=-1, mcse_ind=-1, iact_ind=-1, mp_ind=-1, sp_ind=-1, uh_ind=-1;
      |                                              ^~~~~~~~
mmdiff.cpp:94:59: warning: variable ‘iact_ind’ set but not used [-Wunused-but-set-variable]
   94 |   int feature_ind=-1, lmg_ind=-1, sd_ind=-1, mcse_ind=-1, iact_ind=-1, mp_ind=-1, sp_ind=-1, uh_ind=-1;
      |                                                           ^~~~~~~~
mmdiff.cpp: In function ‘void apply_normalisation(std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >, arma::Mat<double>&, arma::Mat<double>&, double)’:
mmdiff.cpp:212:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  212 |   for(int i=0; i < uh.n_rows; i++) {
      |                ~~^~~~~~~~~~~
mmdiff.cpp:214:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  214 |     for(int j=0; j < uh.n_cols; j++) {
      |                  ~~^~~~~~~~~~~
mmdiff.cpp:230:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int, std::allocator<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  230 |   for(int i=0; i < use.size(); i++) {
      |                ~~^~~~~~~~~~~~
mmdiff.cpp:232:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  232 |     for(int j=0; j < y.n_cols; j++) {
      |                  ~~^~~~~~~~~~
mmdiff.cpp:239:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  239 |   for(int sample=0; sample < y.n_cols; sample++) {
      |                     ~~~~~~~^~~~~~~~~~
mmdiff.cpp:241:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int, std::allocator<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  241 |     for(int i=0; i < use.size(); i++) {
      |                  ~~^~~~~~~~~~~~
mmdiff.cpp:246:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  246 |     for(int i=0; i < y.n_rows; i++) {
      |                  ~~^~~~~~~~~~
mmdiff.cpp: In function ‘void apply_permutation(arma::Mat<double>&, arma::Mat<double>&)’:
mmdiff.cpp:257:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  257 |   for(int j=0; j< y.n_cols; j++) randinds.push_back(j);
      |                ~^~~~~~~~~~
mmdiff.cpp:258:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  258 |   for(int i=0; i < y.n_rows; i++) {
      |                ~~^~~~~~~~~~
mmdiff.cpp:259:19: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<int*, vector<int, allocator<int> > >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations]
  259 |     random_shuffle(randinds.begin(), randinds.end());
      |     ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/15/algorithm:63,
                 from mmdiff.cpp:31:
/usr/include/c++/15/bits/stl_algo.h:4509:5: note: declared here
 4509 |     random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last)
      |     ^~~~~~~~~~~~~~
mmdiff.cpp:260:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  260 |     for(int j=0; j < y.n_cols; j++) {
      |                  ~~^~~~~~~~~~
mmdiff.cpp: In function ‘void parse_matrices(std::string, arma::Mat<double>&, arma::Mat<double>&, arma::Mat<double>&, arma::Mat<int>&, int)’:
mmdiff.cpp:310:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  310 |     for(int t=0; t < tokens.size(); t++) {
      |                  ~~^~~~~~~~~~~~~~~
mmdiff.cpp: In function ‘int main(int, char**)’:
mmdiff.cpp:420:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  420 |       for(int i=0; i < arguments.size(); i++) {
      |                    ~~^~~~~~~~~~~~~~~~~~
mmdiff.cpp:431:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  431 |       for(int i=0; i < arguments.size(); i++) {
      |                    ~~^~~~~~~~~~~~~~~~~~
mmdiff.cpp:439:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  439 |       while(ss < arguments.size()) {
      |             ~~~^~~~~~~~~~~~~~~~~~
mmdiff.cpp:451:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  451 |       if(ss != arguments.size()) {
      |          ~~~^~~~~~~~~~~~~~~~~~~
mmdiff.cpp:578:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  578 |   for(int i=0; i < arguments.size(); i++) {
      |                ~~^~~~~~~~~~~~~~~~~~
mmdiff.cpp:640:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int, std::allocator<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  640 |     for(int i=0; i < simple_de.size(); i++) {
      |                  ~~^~~~~~~~~~~~~~~~~~
mmdiff.cpp:759:17: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses]
  759 |     if(inburnin && iter == OUTLEN/10 || !inburnin && iter==tuneiters) {
      |        ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:764:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  764 |     for(int feature=0; feature < features.size(); feature++) {
      |                        ~~~~~~~~^~~~~~~~~~~~~~~~~
mmdiff.cpp:837:17: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses]
  837 |     if(inburnin && iter % subsample_burnin ==0 || !inburnin && iter >= tuneiters && (iter - tuneiters) % subsample_iter == 0) {
      |        ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:886:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  886 |       for(int l=0; l < M.n_cols; l++) {
      |                    ~~^~~~~~~~~~
mmdiff.cpp:898:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  898 |   for(int f=0; f < samplenames.size(); f++) {
      |                ~~^~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:902:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const std::__cxx11::basic_string<char>::size_type’ {aka ‘const long unsigned int’} [-Wsign-compare]
  902 |       found2 = found2==string::npos ? -1 : found2;
      |                ~~~~~~^~~~~~~~~~~~~~
mmdiff.cpp:907:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  907 |   for(int f=0; f < samplenames.size(); f++) {
      |                ~~^~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:909:10: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  909 |     if(f < samplenames.size()-1) cout << "\t";
      |        ~~^~~~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:914:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  914 |   for(int feature=0; feature < features.size(); feature++) {
      |                      ~~~~~~~~^~~~~~~~~~~~~~~~~
mmdiff.cpp:926:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  926 |         for(int l=0; l < M.n_cols; l++) {
      |                      ~~^~~~~~~~~~
mmdiff.cpp:936:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  936 |     for(int f=0; f < samplenames.size(); f++) {
      |                  ~~^~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:939:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  939 |     for(int f=0; f < samplenames.size(); f++) {
      |                  ~~^~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:941:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  941 |       if(f < samplenames.size()-1) cout << "\t";
      |          ~~^~~~~~~~~~~~~~~~~~~~~~
mmdiff.cpp:951:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  951 |       for(int feature=0; feature < features.size(); feature++) {
      |                          ~~~~~~~~^~~~~~~~~~~~~~~~~
bms.cpp: In member function ‘initialise_streams’:
bms.cpp:1408:30: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=]
 1408 |   ofs = new ofstream[nstreams];
      |                              ^
/usr/include/c++/15/new:140:26: note: in a call to allocation function ‘operator new []’ declared here
  140 | _GLIBCXX_NODISCARD void* operator new[](std::size_t)
      |                          ^
/usr/bin/ld: /tmp/ccuDdurX.ltrans1.ltrans.o: in function `main':
/builddir/build/BUILD/mmseq-1.0.11-build/mmseq-1.0.11/src/bam2hits.cpp:653:(.text.startup+0x528d): warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.S3DFbN
+ umask 022
+ cd /builddir/build/BUILD/mmseq-1.0.11-build
+ '[' /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT '!=' / ']'
+ rm -rf /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT
++ dirname /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT
+ mkdir -p /builddir/build/BUILD/mmseq-1.0.11-build
+ mkdir /builddir/build/BUILD/mmseq-1.0.11-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  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -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-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 mmseq-1.0.11
+ rm -rf /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT
+ mkdir -p /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/bin
+ install -p -m 0755 bin/bam2hits /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/bin
+ install -p -m 0755 bin/extract_transcripts /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/bin
+ install -p -m 0755 bin/hitstools /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/bin
+ install -p -m 0755 bin/mmcollapse /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/bin
+ install -p -m 0755 bin/mmdiff /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/bin
+ install -p -m 0755 bin/mmseq /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/bin
+ install -p -m 0755 bin/offsetGTF /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/bin
+ install -p -m 0755 bin/t2g_hits /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/bin
+ install -p -m 0755 bin/fastagrep.sh bin/mouse_strain_transcriptome.sh bin/usage.sh /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/bin
+ install -p -m 0755 bin/filterGTF.rb bin/haploref.rb bin/testregexp.rb /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/bin
+ install -p -m 0755 bin/ensembl_gtf_to_gff.pl /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/bin
+ /usr/bin/find-debuginfo -j4 --strict-build-id -m -i --build-id-seed 1.0.11-23.fc42 --unique-debug-suffix -1.0.11-23.fc42.x86_64 --unique-debug-src-base mmseq-1.0.11-23.fc42.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/mmseq-1.0.11-build/mmseq-1.0.11
find-debuginfo: starting
Extracting debug info from 8 files
DWARF-compressing 8 files
sepdebugcrcfix: Updated 8 CRC32s, 0 CRC32s did match.
Creating .debug symlinks for symlinks to ELF files
Copying sources found by 'debugedit -l' to /usr/src/debug/mmseq-1.0.11-23.fc42.x86_64
find-debuginfo: done
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/check-rpaths
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
mangling shebang in /usr/bin/fastagrep.sh from /bin/bash to #!/usr/bin/bash
mangling shebang in /usr/bin/mouse_strain_transcriptome.sh from /bin/sh to #!/usr/bin/sh
mangling shebang in /usr/bin/usage.sh from /bin/bash to #!/usr/bin/bash
mangling shebang in /usr/bin/filterGTF.rb from /usr/bin/env ruby to #!/usr/bin/ruby
mangling shebang in /usr/bin/haploref.rb from /usr/bin/env ruby to #!/usr/bin/ruby
mangling shebang in /usr/bin/testregexp.rb from /usr/bin/env ruby to #!/usr/bin/ruby
mangling shebang in /usr/bin/ensembl_gtf_to_gff.pl from /usr/bin/env perl to #!/usr/bin/perl
+ /usr/lib/rpm/brp-remove-la-files
+ 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/mmseq-1.0.11-build/BUILDROOT
Scanned 12 directories and 40 files,
               processed 0 inodes,
               0 modified (0 replaced + 0 rewritten),
               0 unsupported format, 0 errors
Reading /builddir/build/BUILD/mmseq-1.0.11-build/SPECPARTS/rpm-debuginfo.specpart
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.Vo4LrX
+ umask 022
+ cd /builddir/build/BUILD/mmseq-1.0.11-build
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -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-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 mmseq-1.0.11
++ bin/mmseq --version
++ true
+ test mmseq-1.0.11 = mmseq-1.0.11
+ RPM_EC=0
++ jobs -p
+ exit 0
Processing files: mmseq-1.0.11-23.fc42.x86_64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.sJEd5o
+ umask 022
+ cd /builddir/build/BUILD/mmseq-1.0.11-build
+ cd mmseq-1.0.11
+ DOCDIR=/builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/share/doc/mmseq
+ export LC_ALL=C.UTF-8
+ LC_ALL=C.UTF-8
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/share/doc/mmseq
+ cp -pr /builddir/build/BUILD/mmseq-1.0.11-build/mmseq-1.0.11/README.md /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/share/doc/mmseq
+ cp -pr /builddir/build/BUILD/mmseq-1.0.11-build/mmseq-1.0.11/COPYING /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/share/doc/mmseq
+ cp -pr /builddir/build/BUILD/mmseq-1.0.11-build/mmseq-1.0.11/doc /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT/usr/share/doc/mmseq
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: mmseq = 1.0.11-23.fc42 mmseq(x86-64) = 1.0.11-23.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: /usr/bin/bash /usr/bin/perl /usr/bin/ruby /usr/bin/sh libboost_iostreams.so.1.83.0()(64bit) libboost_regex.so.1.83.0()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_2.4)(64bit) libflexiblas.so.3()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libgomp.so.1()(64bit) libgomp.so.1(GOMP_1.0)(64bit) libgomp.so.1(GOMP_4.0)(64bit) libgomp.so.1(OMP_1.0)(64bit) libgsl.so.27()(64bit) libgslcblas.so.0()(64bit) libhts.so.3()(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.29)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.15)(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_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.30)(64bit) libstdc++.so.6(GLIBCXX_3.4.32)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) perl(strict) rtld(GNU_HASH)
Processing files: mmseq-debugsource-1.0.11-23.fc42.x86_64
Provides: mmseq-debugsource = 1.0.11-23.fc42 mmseq-debugsource(x86-64) = 1.0.11-23.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: mmseq-debuginfo-1.0.11-23.fc42.x86_64
Provides: debuginfo(build-id) = 2a3677e2f3988783756ebd1cc7f6b3d17721f15d debuginfo(build-id) = 60f811b4051f4f76dc5f0e4636f18a7723c9798d debuginfo(build-id) = 7621b1d3385648cd1503a0c30ea75bad45638e99 debuginfo(build-id) = 92256ecc2e20b3c471bbcb8965ad7f5dcfaeba6c debuginfo(build-id) = 9af485dc649c9fbfa3eff0b25b9db99d511ce2d4 debuginfo(build-id) = b00a1b4a0263b35a38886694ff4a028cf742cea8 debuginfo(build-id) = c3debccb3b380989ed9ecc4a3a4f7d50ddd9f0f4 debuginfo(build-id) = e1d55844b80845735c53afd212fb0b1923237e5c mmseq-debuginfo = 1.0.11-23.fc42 mmseq-debuginfo(x86-64) = 1.0.11-23.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: mmseq-debugsource(x86-64) = 1.0.11-23.fc42
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILD/mmseq-1.0.11-build/BUILDROOT
Wrote: /builddir/build/RPMS/mmseq-debugsource-1.0.11-23.fc42.x86_64.rpm
Wrote: /builddir/build/RPMS/mmseq-1.0.11-23.fc42.x86_64.rpm
Wrote: /builddir/build/RPMS/mmseq-debuginfo-1.0.11-23.fc42.x86_64.rpm
Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.nMUXV5
+ umask 022
+ cd /builddir/build/BUILD/mmseq-1.0.11-build
+ test -d /builddir/build/BUILD/mmseq-1.0.11-build
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/mmseq-1.0.11-build
+ rm -rf /builddir/build/BUILD/mmseq-1.0.11-build
+ RPM_EC=0
++ jobs -p
+ exit 0
Finish: rpmbuild mmseq-1.0.11-23.fc42.src.rpm
Finish: build phase for mmseq-1.0.11-23.fc42.src.rpm
INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-rawhide-x86_64-1738535035.557167/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/mmseq-1.0.11-23.fc42.src.rpm) Config(child) 1 minutes 8 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": "mmseq-debuginfo",
            "epoch": null,
            "version": "1.0.11",
            "release": "23.fc42",
            "arch": "x86_64"
        },
        {
            "name": "mmseq",
            "epoch": null,
            "version": "1.0.11",
            "release": "23.fc42",
            "arch": "x86_64"
        },
        {
            "name": "mmseq",
            "epoch": null,
            "version": "1.0.11",
            "release": "23.fc42",
            "arch": "src"
        },
        {
            "name": "mmseq-debugsource",
            "epoch": null,
            "version": "1.0.11",
            "release": "23.fc42",
            "arch": "x86_64"
        }
    ]
}
RPMResults finished