Warning: Permanently added '54.167.216.11' (ED25519) to the list of known hosts.
Running (timeout=115200): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-h3w0ig13/mmseq/mmseq.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-h3w0ig13/mmseq --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1733998694.910381 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
INFO: mock.py version 5.9 starting (python version = 3.13.0, NVR = mock-5.9-1.fc41), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-h3w0ig13/mmseq/mmseq.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-h3w0ig13/mmseq --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1733998694.910381 -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-h3w0ig13/mmseq/mmseq.spec)  Config(fedora-rawhide-aarch64)
Start: clean chroot
Finish: clean chroot
Mock Version: 5.9
INFO: Mock Version: 5.9
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1733998694.910381/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 bootstrap image: registry.fedoraproject.org/fedora:rawhide
INFO: Pulling image: registry.fedoraproject.org/fedora:rawhide
INFO: Copy content of container registry.fedoraproject.org/fedora:rawhide to /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1733998694.910381/root
INFO: Checking that registry.fedoraproject.org/fedora:rawhide image matches host's architecture
INFO: mounting registry.fedoraproject.org/fedora:rawhide with podman image mount
INFO: image registry.fedoraproject.org/fedora:rawhide as /var/lib/containers/storage/overlay/8f2136a7e0a951d9dfe12bcc245bdf0dca1d2c4f60f5e7c0f4c1159571dd434c/merged
INFO: umounting image registry.fedoraproject.org/fedora:rawhide (/var/lib/containers/storage/overlay/8f2136a7e0a951d9dfe12bcc245bdf0dca1d2c4f60f5e7c0f4c1159571dd434c/merged) with podman image umount
INFO: Package manager dnf5 detected and used (fallback)
INFO: Not updating bootstrap chroot, bootstrap_image_ready=True
Start(bootstrap): creating root cache
Finish(bootstrap): creating root cache
Finish(bootstrap): chroot init
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-1733998694.910381/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.aarch64
  rpm-sequoia-1.7.0-3.fc42.aarch64
  dnf5-5.2.8.1-2.fc42.aarch64
  dnf5-plugins-5.2.8.1-2.fc42.aarch64
Start: installing minimal buildroot with dnf5
Updating and loading repositories:
 fedora                                 100% |  32.6 MiB/s |  21.0 MiB |  00m01s
 Copr repository                        100% |  17.9 MiB/s |   6.4 MiB |  00m00s
Repositories loaded.
Package                            Arch    Version                    Repository      Size
Installing group/module packages:
 bash                              aarch64 5.2.37-1.fc42              copr_base    8.1 MiB
 bzip2                             aarch64 1.0.8-19.fc42              copr_base  168.7 KiB
 coreutils                         aarch64 9.5-11.fc42                copr_base    7.8 MiB
 cpio                              aarch64 2.15-2.fc42                copr_base    1.1 MiB
 diffutils                         aarch64 3.10-8.fc42                copr_base    1.7 MiB
 fedora-release-common             noarch  42-0.11                    fedora      19.8 KiB
 findutils                         aarch64 1:4.10.0-4.fc42            copr_base    1.9 MiB
 gawk                              aarch64 5.3.0-4.fc42               copr_base    2.4 MiB
 glibc-minimal-langpack            aarch64 2.40.9000-21.fc42          copr_base    0.0   B
 grep                              aarch64 3.11-9.fc42                copr_base    1.0 MiB
 gzip                              aarch64 1.13-2.fc42                copr_base  422.7 KiB
 info                              aarch64 7.1.1-2.fc42               fedora     613.6 KiB
 patch                             aarch64 2.7.6-25.fc41              fedora     390.6 KiB
 redhat-rpm-config                 noarch  296-1.fc42                 fedora     186.6 KiB
 rpm-build                         aarch64 4.20.0-1.fc42              fedora       1.4 MiB
 sed                               aarch64 4.9-3.fc41                 fedora       1.0 MiB
 shadow-utils                      aarch64 2:4.17.0~rc1-1.fc42        fedora       4.5 MiB
 tar                               aarch64 2:1.35-4.fc41              fedora       3.1 MiB
 unzip                             aarch64 6.0-65.fc42                fedora       2.3 MiB
 util-linux                        aarch64 2.40.2-8.fc42              fedora      16.9 MiB
 which                             aarch64 2.21-42.fc41               fedora     248.2 KiB
 xz                                aarch64 1:5.6.3-2.fc42             fedora       1.5 MiB
Installing dependencies:
 add-determinism                   aarch64 0.4.3-1.fc42               fedora       2.1 MiB
 alternatives                      aarch64 1.30-1.fc42                copr_base   88.7 KiB
 ansible-srpm-macros               noarch  1-16.fc41                  fedora      35.7 KiB
 audit-libs                        aarch64 4.0.2-1.fc42               copr_base  415.2 KiB
 authselect                        aarch64 1.5.0-8.fc42               copr_base  179.9 KiB
 authselect-libs                   aarch64 1.5.0-8.fc42               copr_base  865.5 KiB
 basesystem                        noarch  11-21.fc41                 fedora       0.0   B
 binutils                          aarch64 2.43.50-9.fc42             copr_base   28.9 MiB
 build-reproducibility-srpm-macros noarch  0.4.3-1.fc42               fedora     735.0   B
 bzip2-libs                        aarch64 1.0.8-19.fc42              copr_base   71.1 KiB
 ca-certificates                   noarch  2024.2.69_v8.0.401-3.fc42  fedora       2.6 MiB
 coreutils-common                  aarch64 9.5-11.fc42                copr_base   11.2 MiB
 cracklib                          aarch64 2.9.11-6.fc42              copr_base  417.7 KiB
 crypto-policies                   noarch  20241128-1.gitbb7b0b0.fc42 fedora     137.3 KiB
 curl                              aarch64 8.11.1-1.fc42              fedora     452.0 KiB
 cyrus-sasl-lib                    aarch64 2.1.28-27.fc41             fedora       3.1 MiB
 debugedit                         aarch64 5.1-2.fc42                 copr_base  241.5 KiB
 dwz                               aarch64 0.15-8.fc42                copr_base  319.6 KiB
 ed                                aarch64 1.20.2-2.fc42              copr_base  152.9 KiB
 efi-srpm-macros                   noarch  5-13.fc42                  fedora      40.2 KiB
 elfutils                          aarch64 0.192-7.fc42               copr_base    3.1 MiB
 elfutils-debuginfod-client        aarch64 0.192-7.fc42               copr_base  141.3 KiB
 elfutils-default-yama-scope       noarch  0.192-7.fc42               copr_base    1.8 KiB
 elfutils-libelf                   aarch64 0.192-7.fc42               copr_base    1.2 MiB
 elfutils-libs                     aarch64 0.192-7.fc42               copr_base  734.9 KiB
 fedora-gpg-keys                   noarch  42-0.3                     fedora     126.4 KiB
 fedora-release                    noarch  42-0.11                    fedora       0.0   B
 fedora-release-identity-basic     noarch  42-0.11                    fedora     719.0   B
 fedora-repos                      noarch  42-0.3                     fedora       4.9 KiB
 fedora-repos-rawhide              noarch  42-0.3                     fedora       2.2 KiB
 file                              aarch64 5.45-8.fc42                fedora     139.5 KiB
 file-libs                         aarch64 5.45-8.fc42                fedora      10.0 MiB
 filesystem                        aarch64 3.18-29.fc42               fedora     106.0   B
 fonts-srpm-macros                 noarch  1:2.0.5-17.fc41            fedora      55.8 KiB
 forge-srpm-macros                 noarch  0.4.0-1.fc42               fedora      38.9 KiB
 fpc-srpm-macros                   noarch  1.3-13.fc41                fedora     144.0   B
 gdb-minimal                       aarch64 15.2-4.fc42                fedora      12.7 MiB
 gdbm                              aarch64 1:1.23-7.fc42              copr_base  537.9 KiB
 gdbm-libs                         aarch64 1:1.23-7.fc42              copr_base  230.7 KiB
 ghc-srpm-macros                   noarch  1.9.2-1.fc42               fedora     779.0   B
 glibc                             aarch64 2.40.9000-21.fc42          copr_base    6.1 MiB
 glibc-common                      aarch64 2.40.9000-21.fc42          copr_base    1.3 MiB
 glibc-gconv-extra                 aarch64 2.40.9000-21.fc42          copr_base   18.3 MiB
 gmp                               aarch64 1:6.3.0-2.fc42             copr_base  651.1 KiB
 gnat-srpm-macros                  noarch  6-6.fc41                   fedora       1.0 KiB
 go-srpm-macros                    noarch  3.6.0-5.fc42               fedora      60.8 KiB
 jansson                           aarch64 2.14-1.fc42                copr_base   90.8 KiB
 json-c                            aarch64 0.18-1.fc42                copr_base  135.7 KiB
 kernel-srpm-macros                noarch  1.0-24.fc41                fedora       1.9 KiB
 keyutils-libs                     aarch64 1.6.3-4.fc42               copr_base   96.8 KiB
 krb5-libs                         aarch64 1.21.3-3.fc42              fedora       2.6 MiB
 libacl                            aarch64 2.3.2-2.fc42               copr_base   66.3 KiB
 libarchive                        aarch64 3.7.7-1.fc42               fedora     912.2 KiB
 libattr                           aarch64 2.5.2-4.fc41               fedora     196.6 KiB
 libblkid                          aarch64 2.40.2-8.fc42              fedora     418.6 KiB
 libbrotli                         aarch64 1.1.0-5.fc42               copr_base  904.3 KiB
 libcap                            aarch64 2.71-1.fc42                fedora     509.8 KiB
 libcap-ng                         aarch64 0.8.5-3.fc41               fedora     417.2 KiB
 libcom_err                        aarch64 1.47.1-6.fc42              copr_base  109.9 KiB
 libcurl                           aarch64 8.11.1-1.fc42              fedora     845.2 KiB
 libeconf                          aarch64 0.7.5-1.fc42               fedora      78.7 KiB
 libevent                          aarch64 2.1.12-14.fc41             fedora       1.5 MiB
 libfdisk                          aarch64 2.40.2-8.fc42              fedora     482.9 KiB
 libffi                            aarch64 3.4.6-3.fc42               copr_base  152.5 KiB
 libgcc                            aarch64 14.2.1-6.fc42              fedora     222.2 KiB
 libgomp                           aarch64 14.2.1-6.fc42              fedora     503.2 KiB
 libidn2                           aarch64 2.3.7-2.fc41               fedora     457.2 KiB
 libmount                          aarch64 2.40.2-8.fc42              fedora     483.9 KiB
 libnghttp2                        aarch64 1.64.0-1.fc42              fedora     262.2 KiB
 libnsl2                           aarch64 2.0.1-2.fc41               fedora     222.0 KiB
 libpkgconf                        aarch64 2.3.0-1.fc42               fedora     198.1 KiB
 libpsl                            aarch64 0.21.5-4.fc41              fedora     196.6 KiB
 libpwquality                      aarch64 1.4.5-11.fc41              fedora       1.1 MiB
 libselinux                        aarch64 3.8-0.rc1.2.fc42           fedora     195.6 KiB
 libsemanage                       aarch64 3.8-0.rc1.1.fc42           fedora     353.3 KiB
 libsepol                          aarch64 3.8-0.rc1.1.fc42           fedora     809.9 KiB
 libsmartcols                      aarch64 2.40.2-8.fc42              fedora     288.5 KiB
 libssh                            aarch64 0.11.1-1.fc42              fedora     649.6 KiB
 libssh-config                     noarch  0.11.1-1.fc42              fedora     277.0   B
 libstdc++                         aarch64 14.2.1-6.fc42              fedora       2.8 MiB
 libtasn1                          aarch64 4.19.0-9.fc41              fedora     283.8 KiB
 libtirpc                          aarch64 1.3.6-1.fc42               copr_base  205.5 KiB
 libtool-ltdl                      aarch64 2.5.4-1.fc42               fedora      92.1 KiB
 libunistring                      aarch64 1.1-8.fc41                 fedora       1.8 MiB
 libuuid                           aarch64 2.40.2-8.fc42              fedora     197.5 KiB
 libverto                          aarch64 0.3.2-9.fc41               fedora     197.5 KiB
 libxcrypt                         aarch64 4.4.36-11.fc42             copr_base  269.3 KiB
 libxml2                           aarch64 2.12.8-2.fc41              fedora       2.1 MiB
 libzstd                           aarch64 1.5.6-2.fc41               fedora     796.0 KiB
 lua-libs                          aarch64 5.4.7-1.fc42               fedora     393.1 KiB
 lua-srpm-macros                   noarch  1-14.fc41                  fedora       1.3 KiB
 lz4-libs                          aarch64 1.10.0-1.fc41              fedora     261.6 KiB
 mpfr                              aarch64 4.2.1-5.fc41               fedora     818.9 KiB
 ncurses-base                      noarch  6.5-2.20240629.fc41        fedora     326.3 KiB
 ncurses-libs                      aarch64 6.5-2.20240629.fc41        fedora       2.2 MiB
 ocaml-srpm-macros                 noarch  10-3.fc41                  fedora       1.9 KiB
 openblas-srpm-macros              noarch  2-18.fc41                  fedora     112.0   B
 openldap                          aarch64 2.6.8-6.fc42               fedora     747.0 KiB
 openssl-libs                      aarch64 1:3.2.2-8.fc42             fedora       7.2 MiB
 p11-kit                           aarch64 0.25.5-4.fc42              fedora       2.6 MiB
 p11-kit-trust                     aarch64 0.25.5-4.fc42              fedora     655.7 KiB
 package-notes-srpm-macros         noarch  0.5-12.fc41                fedora       1.6 KiB
 pam                               aarch64 1.7.0-3.fc42               fedora       4.3 MiB
 pam-libs                          aarch64 1.7.0-3.fc42               fedora     223.4 KiB
 pcre2                             aarch64 10.44-1.fc41.1             fedora     905.5 KiB
 pcre2-syntax                      noarch  10.44-1.fc41.1             fedora     251.6 KiB
 perl-srpm-macros                  noarch  1-56.fc41                  fedora     861.0   B
 pkgconf                           aarch64 2.3.0-1.fc42               fedora     240.6 KiB
 pkgconf-m4                        noarch  2.3.0-1.fc42               fedora      14.4 KiB
 pkgconf-pkg-config                aarch64 2.3.0-1.fc42               fedora     990.0   B
 popt                              aarch64 1.19-7.fc41                fedora     272.9 KiB
 publicsuffix-list-dafsa           noarch  20240107-4.fc41            fedora      67.5 KiB
 pyproject-srpm-macros             noarch  1.16.3-1.fc42              fedora       1.9 KiB
 python-srpm-macros                noarch  3.13-3.fc41                fedora      51.0 KiB
 qt5-srpm-macros                   noarch  5.15.15-1.fc42             fedora     500.0   B
 qt6-srpm-macros                   noarch  6.8.1-4.fc42               fedora     456.0   B
 readline                          aarch64 8.2-11.fc42                fedora     753.3 KiB
 rpm                               aarch64 4.20.0-1.fc42              fedora       3.9 MiB
 rpm-build-libs                    aarch64 4.20.0-1.fc42              fedora     262.7 KiB
 rpm-libs                          aarch64 4.20.0-1.fc42              fedora     797.9 KiB
 rpm-sequoia                       aarch64 1.7.0-3.fc42               fedora       2.2 MiB
 rust-srpm-macros                  noarch  26.3-3.fc42                fedora       4.8 KiB
 setup                             noarch  2.15.0-5.fc41              fedora     720.7 KiB
 sqlite-libs                       aarch64 3.47.2-1.fc42              fedora       1.4 MiB
 systemd-libs                      aarch64 257-1.fc42                 fedora       2.4 MiB
 util-linux-core                   aarch64 2.40.2-8.fc42              fedora       6.2 MiB
 xxhash-libs                       aarch64 0.8.2-4.fc42               fedora     212.3 KiB
 xz-libs                           aarch64 1:5.6.3-2.fc42             fedora     266.4 KiB
 zig-srpm-macros                   noarch  1-3.fc41                   fedora       1.1 KiB
 zip                               aarch64 3.0-42.fc42                fedora     755.7 KiB
 zlib-ng-compat                    aarch64 2.2.2-1.fc42               fedora     133.8 KiB
 zstd                              aarch64 1.5.6-2.fc41               fedora       1.7 MiB
Installing groups:
 Buildsystem building group                                                               

Transaction Summary:
 Installing:       154 packages

Total size of inbound packages is 51 MiB. Need to download 51 MiB.
After this operation, 230 MiB extra will be used (install 230 MiB, remove 0 B).
[  1/154] fedora-release-common-0:42-0. 100% |   1.9 MiB/s |  23.9 KiB |  00m00s
[  2/154] redhat-rpm-config-0:296-1.fc4 100% |  40.3 MiB/s |  82.4 KiB |  00m00s
[  3/154] patch-0:2.7.6-25.fc41.aarch64 100% |   8.4 MiB/s | 128.8 KiB |  00m00s
[  4/154] info-0:7.1.1-2.fc42.aarch64   100% |  11.1 MiB/s | 181.3 KiB |  00m00s
[  5/154] rpm-build-0:4.20.0-1.fc42.aar 100% |  41.1 MiB/s |  84.1 KiB |  00m00s
[  6/154] sed-0:4.9-3.fc41.aarch64      100% | 102.7 MiB/s | 315.4 KiB |  00m00s
[  7/154] shadow-utils-2:4.17.0~rc1-1.f 100% | 183.0 MiB/s |   1.3 MiB |  00m00s
[  8/154] tar-2:1.35-4.fc41.aarch64     100% | 104.3 MiB/s | 854.7 KiB |  00m00s
[  9/154] unzip-0:6.0-65.fc42.aarch64   100% |  25.9 MiB/s | 185.5 KiB |  00m00s
[ 10/154] util-linux-0:2.40.2-8.fc42.aa 100% | 195.4 MiB/s |   1.2 MiB |  00m00s
[ 11/154] which-0:2.21-42.fc41.aarch64  100% |  10.1 MiB/s |  41.5 KiB |  00m00s
[ 12/154] xz-1:5.6.3-2.fc42.aarch64     100% |  93.0 MiB/s | 476.1 KiB |  00m00s
[ 13/154] bzip2-0:1.0.8-19.fc42.aarch64 100% |   7.0 MiB/s |  50.0 KiB |  00m00s
[ 14/154] bash-0:5.2.37-1.fc42.aarch64  100% | 116.8 MiB/s |   1.8 MiB |  00m00s
[ 15/154] cpio-0:2.15-2.fc42.aarch64    100% |  34.5 MiB/s | 282.5 KiB |  00m00s
[ 16/154] coreutils-0:9.5-11.fc42.aarch 100% |  59.6 MiB/s | 914.9 KiB |  00m00s
[ 17/154] diffutils-0:3.10-8.fc42.aarch 100% |  54.1 MiB/s | 387.5 KiB |  00m00s
[ 18/154] findutils-1:4.10.0-4.fc42.aar 100% |  65.9 MiB/s | 539.5 KiB |  00m00s
[ 19/154] gawk-0:5.3.0-4.fc42.aarch64   100% | 113.4 MiB/s |   1.0 MiB |  00m00s
[ 20/154] glibc-minimal-langpack-0:2.40 100% |  23.7 MiB/s | 121.2 KiB |  00m00s
[ 21/154] fedora-repos-0:42-0.3.noarch  100% |   9.0 MiB/s |   9.2 KiB |  00m00s
[ 22/154] grep-0:3.11-9.fc42.aarch64    100% |  55.6 MiB/s | 284.8 KiB |  00m00s
[ 23/154] gzip-0:1.13-2.fc42.aarch64    100% |  39.4 MiB/s | 161.2 KiB |  00m00s
[ 24/154] ncurses-libs-0:6.5-2.20240629 100% | 106.3 MiB/s | 326.5 KiB |  00m00s
[ 25/154] libattr-0:2.5.2-4.fc41.aarch6 100% |   8.9 MiB/s |  18.2 KiB |  00m00s
[ 26/154] ansible-srpm-macros-0:1-16.fc 100% |  20.3 MiB/s |  20.8 KiB |  00m00s
[ 27/154] libselinux-0:3.8-0.rc1.2.fc42 100% |  29.4 MiB/s |  90.4 KiB |  00m00s
[ 28/154] build-reproducibility-srpm-ma 100% |  10.9 MiB/s |  11.2 KiB |  00m00s
[ 29/154] efi-srpm-macros-0:5-13.fc42.n 100% |  21.9 MiB/s |  22.5 KiB |  00m00s
[ 30/154] file-0:5.45-8.fc42.aarch64    100% |  47.8 MiB/s |  49.0 KiB |  00m00s
[ 31/154] fonts-srpm-macros-1:2.0.5-17. 100% |  26.3 MiB/s |  27.0 KiB |  00m00s
[ 32/154] forge-srpm-macros-0:0.4.0-1.f 100% |  19.3 MiB/s |  19.8 KiB |  00m00s
[ 33/154] fpc-srpm-macros-0:1.3-13.fc41 100% |   7.8 MiB/s |   8.0 KiB |  00m00s
[ 34/154] ghc-srpm-macros-0:1.9.2-1.fc4 100% |   8.9 MiB/s |   9.1 KiB |  00m00s
[ 35/154] gnat-srpm-macros-0:6-6.fc41.n 100% |   8.7 MiB/s |   9.0 KiB |  00m00s
[ 36/154] go-srpm-macros-0:3.6.0-5.fc42 100% |  27.3 MiB/s |  28.0 KiB |  00m00s
[ 37/154] kernel-srpm-macros-0:1.0-24.f 100% |   9.6 MiB/s |   9.9 KiB |  00m00s
[ 38/154] lua-srpm-macros-0:1-14.fc41.n 100% |   8.7 MiB/s |   8.9 KiB |  00m00s
[ 39/154] ocaml-srpm-macros-0:10-3.fc41 100% |   9.0 MiB/s |   9.2 KiB |  00m00s
[ 40/154] openblas-srpm-macros-0:2-18.f 100% |   7.5 MiB/s |   7.7 KiB |  00m00s
[ 41/154] package-notes-srpm-macros-0:0 100% |   9.6 MiB/s |   9.8 KiB |  00m00s
[ 42/154] perl-srpm-macros-0:1-56.fc41. 100% |   8.3 MiB/s |   8.5 KiB |  00m00s
[ 43/154] pyproject-srpm-macros-0:1.16. 100% |  13.5 MiB/s |  13.9 KiB |  00m00s
[ 44/154] python-srpm-macros-0:3.13-3.f 100% |  23.2 MiB/s |  23.7 KiB |  00m00s
[ 45/154] qt5-srpm-macros-0:5.15.15-1.f 100% |   8.7 MiB/s |   8.9 KiB |  00m00s
[ 46/154] qt6-srpm-macros-0:6.8.1-4.fc4 100% |   9.1 MiB/s |   9.3 KiB |  00m00s
[ 47/154] rust-srpm-macros-0:26.3-3.fc4 100% |  11.8 MiB/s |  12.1 KiB |  00m00s
[ 48/154] zig-srpm-macros-0:1-3.fc41.no 100% |   7.9 MiB/s |   8.1 KiB |  00m00s
[ 49/154] rpm-0:4.20.0-1.fc42.aarch64   100% | 134.0 MiB/s | 549.0 KiB |  00m00s
[ 50/154] zip-0:3.0-42.fc42.aarch64     100% |  83.0 MiB/s | 255.1 KiB |  00m00s
[ 51/154] libarchive-0:3.7.7-1.fc42.aar 100% |  99.9 MiB/s | 409.1 KiB |  00m00s
[ 52/154] pkgconf-pkg-config-0:2.3.0-1. 100% |   4.9 MiB/s |  10.0 KiB |  00m00s
[ 53/154] popt-0:1.19-7.fc41.aarch64    100% |  32.2 MiB/s |  66.0 KiB |  00m00s
[ 54/154] readline-0:8.2-11.fc42.aarch6 100% |  69.3 MiB/s | 212.7 KiB |  00m00s
[ 55/154] rpm-build-libs-0:4.20.0-1.fc4 100% |  31.0 MiB/s |  95.1 KiB |  00m00s
[ 56/154] rpm-libs-0:4.20.0-1.fc42.aarc 100% |  98.6 MiB/s | 302.8 KiB |  00m00s
[ 57/154] libeconf-0:0.7.5-1.fc42.aarch 100% |  32.7 MiB/s |  33.4 KiB |  00m00s
[ 58/154] zstd-0:1.5.6-2.fc41.aarch64   100% | 148.7 MiB/s | 456.8 KiB |  00m00s
[ 59/154] pam-libs-0:1.7.0-3.fc42.aarch 100% |  28.3 MiB/s |  58.0 KiB |  00m00s
[ 60/154] libsemanage-0:3.8-0.rc1.1.fc4 100% |  36.5 MiB/s | 112.1 KiB |  00m00s
[ 61/154] libcap-ng-0:0.8.5-3.fc41.aarc 100% |  32.0 MiB/s |  32.8 KiB |  00m00s
[ 62/154] setup-0:2.15.0-5.fc41.noarch  100% |  75.4 MiB/s | 154.4 KiB |  00m00s
[ 63/154] libblkid-0:2.40.2-8.fc42.aarc 100% |  60.7 MiB/s | 124.3 KiB |  00m00s
[ 64/154] libfdisk-0:2.40.2-8.fc42.aarc 100% |  76.0 MiB/s | 155.7 KiB |  00m00s
[ 65/154] libmount-0:2.40.2-8.fc42.aarc 100% |  75.5 MiB/s | 154.6 KiB |  00m00s
[ 66/154] libsmartcols-0:2.40.2-8.fc42. 100% |  40.5 MiB/s |  82.9 KiB |  00m00s
[ 67/154] libuuid-0:2.40.2-8.fc42.aarch 100% |  28.8 MiB/s |  29.5 KiB |  00m00s
[ 68/154] pam-0:1.7.0-3.fc42.aarch64    100% | 109.3 MiB/s | 559.4 KiB |  00m00s
[ 69/154] systemd-libs-0:257-1.fc42.aar 100% | 122.0 MiB/s | 749.6 KiB |  00m00s
[ 70/154] util-linux-core-0:2.40.2-8.fc 100% |  74.2 MiB/s | 532.1 KiB |  00m00s
[ 71/154] zlib-ng-compat-0:2.2.2-1.fc42 100% |  16.0 MiB/s |  65.7 KiB |  00m00s
[ 72/154] xz-libs-1:5.6.3-2.fc42.aarch6 100% |  36.2 MiB/s | 111.1 KiB |  00m00s
[ 73/154] filesystem-0:3.18-29.fc42.aar 100% | 181.1 MiB/s |   1.1 MiB |  00m00s
[ 74/154] libcap-0:2.71-1.fc42.aarch64  100% |  17.0 MiB/s |  86.8 KiB |  00m00s
[ 75/154] openssl-libs-1:3.2.2-8.fc42.a 100% | 198.9 MiB/s |   2.2 MiB |  00m00s
[ 76/154] mpfr-0:4.2.1-5.fc41.aarch64   100% |  39.7 MiB/s | 324.8 KiB |  00m00s
[ 77/154] pcre2-0:10.44-1.fc41.1.aarch6 100% |  27.7 MiB/s | 227.0 KiB |  00m00s
[ 78/154] fedora-repos-rawhide-0:42-0.3 100% |   8.6 MiB/s |   8.8 KiB |  00m00s
[ 79/154] fedora-gpg-keys-0:42-0.3.noar 100% |  43.5 MiB/s | 133.6 KiB |  00m00s
[ 80/154] ncurses-base-0:6.5-2.20240629 100% |  43.1 MiB/s |  88.4 KiB |  00m00s
[ 81/154] libsepol-0:3.8-0.rc1.1.fc42.a 100% | 160.8 MiB/s | 329.4 KiB |  00m00s
[ 82/154] add-determinism-0:0.4.3-1.fc4 100% | 205.3 MiB/s | 841.1 KiB |  00m00s
[ 83/154] file-libs-0:5.45-8.fc42.aarch 100% | 123.9 MiB/s | 761.3 KiB |  00m00s
[ 84/154] libxml2-0:2.12.8-2.fc41.aarch 100% |  94.6 MiB/s | 677.8 KiB |  00m00s
[ 85/154] libzstd-0:1.5.6-2.fc41.aarch6 100% |  46.9 MiB/s | 288.0 KiB |  00m00s
[ 86/154] lz4-libs-0:1.10.0-1.fc41.aarc 100% |  23.5 MiB/s |  72.3 KiB |  00m00s
[ 87/154] pkgconf-0:2.3.0-1.fc42.aarch6 100% |  22.1 MiB/s |  45.2 KiB |  00m00s
[ 88/154] pkgconf-m4-0:2.3.0-1.fc42.noa 100% |  14.0 MiB/s |  14.3 KiB |  00m00s
[ 89/154] libgcc-0:14.2.1-6.fc42.aarch6 100% |  57.7 MiB/s | 118.2 KiB |  00m00s
[ 90/154] libgomp-0:14.2.1-6.fc42.aarch 100% | 112.8 MiB/s | 346.4 KiB |  00m00s
[ 91/154] lua-libs-0:5.4.7-1.fc42.aarch 100% |  42.2 MiB/s | 129.7 KiB |  00m00s
[ 92/154] rpm-sequoia-0:1.7.0-3.fc42.aa 100% | 191.1 MiB/s | 782.6 KiB |  00m00s
[ 93/154] sqlite-libs-0:3.47.2-1.fc42.a 100% | 134.1 MiB/s | 686.5 KiB |  00m00s
[ 94/154] libstdc++-0:14.2.1-6.fc42.aar 100% | 135.8 MiB/s | 834.1 KiB |  00m00s
[ 95/154] libnsl2-0:2.0.1-2.fc41.aarch6 100% |   7.4 MiB/s |  30.1 KiB |  00m00s
[ 96/154] libpwquality-0:1.4.5-11.fc41. 100% |  39.0 MiB/s | 119.8 KiB |  00m00s
[ 97/154] ca-certificates-0:2024.2.69_v 100% | 230.6 MiB/s | 944.5 KiB |  00m00s
[ 98/154] crypto-policies-0:20241128-1. 100% |  19.2 MiB/s |  98.4 KiB |  00m00s
[ 99/154] pcre2-syntax-0:10.44-1.fc41.1 100% |  36.6 MiB/s | 149.9 KiB |  00m00s
[100/154] libpkgconf-0:2.3.0-1.fc42.aar 100% |  37.5 MiB/s |  38.4 KiB |  00m00s
[101/154] p11-kit-0:0.25.5-4.fc42.aarch 100% | 155.7 MiB/s | 478.3 KiB |  00m00s
[102/154] p11-kit-trust-0:0.25.5-4.fc42 100% |  43.8 MiB/s | 134.4 KiB |  00m00s
[103/154] libtasn1-0:4.19.0-9.fc41.aarc 100% |  23.8 MiB/s |  73.0 KiB |  00m00s
[104/154] basesystem-0:11-21.fc41.noarc 100% |   7.2 MiB/s |   7.4 KiB |  00m00s
[105/154] glibc-0:2.40.9000-21.fc42.aar 100% | 180.6 MiB/s |   1.8 MiB |  00m00s
[106/154] glibc-common-0:2.40.9000-21.f 100% |  37.1 MiB/s | 379.5 KiB |  00m00s
[107/154] gmp-1:6.3.0-2.fc42.aarch64    100% |  86.2 MiB/s | 264.9 KiB |  00m00s
[108/154] libacl-0:2.3.2-2.fc42.aarch64 100% |   7.7 MiB/s |  23.6 KiB |  00m00s
[109/154] coreutils-common-0:9.5-11.fc4 100% | 190.7 MiB/s |   2.1 MiB |  00m00s
[110/154] bzip2-libs-0:1.0.8-19.fc42.aa 100% |  10.1 MiB/s |  41.6 KiB |  00m00s
[111/154] glibc-gconv-extra-0:2.40.9000 100% |  69.1 MiB/s |   1.5 MiB |  00m00s
[112/154] libxcrypt-0:4.4.36-11.fc42.aa 100% |  39.3 MiB/s | 120.7 KiB |  00m00s
[113/154] audit-libs-0:4.0.2-1.fc42.aar 100% |  40.0 MiB/s | 122.8 KiB |  00m00s
[114/154] authselect-libs-0:1.5.0-8.fc4 100% |  39.5 MiB/s | 202.4 KiB |  00m00s
[115/154] elfutils-libelf-0:0.192-7.fc4 100% |  40.2 MiB/s | 205.7 KiB |  00m00s
[116/154] elfutils-libs-0:0.192-7.fc42. 100% |  49.1 MiB/s | 251.5 KiB |  00m00s
[117/154] debugedit-0:5.1-2.fc42.aarch6 100% |  25.0 MiB/s |  76.7 KiB |  00m00s
[118/154] curl-0:8.11.1-1.fc42.aarch64  100% |  70.5 MiB/s | 216.5 KiB |  00m00s
[119/154] elfutils-0:0.192-7.fc42.aarch 100% |  69.0 MiB/s | 494.5 KiB |  00m00s
[120/154] dwz-0:0.15-8.fc42.aarch64     100% |  33.0 MiB/s | 135.2 KiB |  00m00s
[121/154] ed-0:1.20.2-2.fc42.aarch64    100% |  19.5 MiB/s |  79.9 KiB |  00m00s
[122/154] authselect-0:1.5.0-8.fc42.aar 100% |  34.2 MiB/s | 140.2 KiB |  00m00s
[123/154] gdbm-1:1.23-7.fc42.aarch64    100% |  34.5 MiB/s | 141.4 KiB |  00m00s
[124/154] libtirpc-0:1.3.6-1.fc42.aarch 100% |  44.3 MiB/s |  90.8 KiB |  00m00s
[125/154] gdbm-libs-1:1.23-7.fc42.aarch 100% |  10.5 MiB/s |  53.8 KiB |  00m00s
[126/154] binutils-0:2.43.50-9.fc42.aar 100% | 213.5 MiB/s |   6.0 MiB |  00m00s
[127/154] krb5-libs-0:1.21.3-3.fc42.aar 100% |  83.1 MiB/s | 765.5 KiB |  00m00s
[128/154] libverto-0:0.3.2-9.fc41.aarch 100% |   2.6 MiB/s |  20.9 KiB |  00m00s
[129/154] alternatives-0:1.30-1.fc42.aa 100% |  19.7 MiB/s |  40.4 KiB |  00m00s
[130/154] libffi-0:3.4.6-3.fc42.aarch64 100% |  35.9 MiB/s |  36.8 KiB |  00m00s
[131/154] keyutils-libs-0:1.6.3-4.fc42. 100% |  15.0 MiB/s |  30.7 KiB |  00m00s
[132/154] cracklib-0:2.9.11-6.fc42.aarc 100% |  25.3 MiB/s |  77.7 KiB |  00m00s
[133/154] libcom_err-0:1.47.1-6.fc42.aa 100% |  12.6 MiB/s |  25.8 KiB |  00m00s
[134/154] elfutils-default-yama-scope-0 100% |   6.3 MiB/s |  13.0 KiB |  00m00s
[135/154] jansson-0:2.14-1.fc42.aarch64 100% |  21.9 MiB/s |  44.9 KiB |  00m00s
[136/154] elfutils-debuginfod-client-0: 100% |  14.3 MiB/s |  44.0 KiB |  00m00s
[137/154] json-c-0:0.18-1.fc42.aarch64  100% |  20.9 MiB/s |  42.9 KiB |  00m00s
[138/154] fedora-release-0:42-0.11.noar 100% |  12.7 MiB/s |  13.0 KiB |  00m00s
[139/154] xxhash-libs-0:0.8.2-4.fc42.aa 100% |  33.8 MiB/s |  34.6 KiB |  00m00s
[140/154] fedora-release-identity-basic 100% |   2.7 MiB/s |  13.8 KiB |  00m00s
[141/154] gdb-minimal-0:15.2-4.fc42.aar 100% | 324.5 MiB/s |   3.9 MiB |  00m00s
[142/154] libcurl-0:8.11.1-1.fc42.aarch 100% |  31.2 MiB/s | 351.0 KiB |  00m00s
[143/154] libidn2-0:2.3.7-2.fc41.aarch6 100% |  16.6 MiB/s | 118.8 KiB |  00m00s
[144/154] libnghttp2-0:1.64.0-1.fc42.aa 100% |  37.5 MiB/s |  76.8 KiB |  00m00s
[145/154] libpsl-0:0.21.5-4.fc41.aarch6 100% |  31.5 MiB/s |  64.4 KiB |  00m00s
[146/154] libssh-0:0.11.1-1.fc42.aarch6 100% |  75.9 MiB/s | 233.0 KiB |  00m00s
[147/154] openldap-0:2.6.8-6.fc42.aarch 100% | 116.7 MiB/s | 239.0 KiB |  00m00s
[148/154] libunistring-0:1.1-8.fc41.aar 100% | 175.7 MiB/s | 539.8 KiB |  00m00s
[149/154] publicsuffix-list-dafsa-0:202 100% |  28.5 MiB/s |  58.3 KiB |  00m00s
[150/154] libssh-config-0:0.11.1-1.fc42 100% |   4.6 MiB/s |   9.4 KiB |  00m00s
[151/154] libtool-ltdl-0:2.5.4-1.fc42.a 100% |  33.1 MiB/s |  33.8 KiB |  00m00s
[152/154] cyrus-sasl-lib-0:2.1.28-27.fc 100% | 190.5 MiB/s | 780.2 KiB |  00m00s
[153/154] libevent-0:2.1.12-14.fc41.aar 100% |  62.1 MiB/s | 254.6 KiB |  00m00s
[154/154] libbrotli-0:1.1.0-5.fc42.aarc 100% |  83.1 MiB/s | 340.3 KiB |  00m00s
--------------------------------------------------------------------------------
[154/154] Total                         100% | 144.9 MiB/s |  50.6 MiB |  00m00s
Running transaction
Importing OpenPGP key 0x105EF944:
 UserID     : "Fedora (42) <fedora-42-primary@fedoraproject.org>"
 Fingerprint: B0F4950458F69E1150C6C5EDC8AC4916105EF944
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-42-primary
The key was successfully imported.
Importing OpenPGP key 0x105EF944:
 UserID     : "Fedora (42) <fedora-42-primary@fedoraproject.org>"
 Fingerprint: B0F4950458F69E1150C6C5EDC8AC4916105EF944
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-42-primary
The key was successfully imported.
Importing OpenPGP key 0xE99D6AD1:
 UserID     : "Fedora (41) <fedora-41-primary@fedoraproject.org>"
 Fingerprint: 466CF2D8B60BC3057AA9453ED0622462E99D6AD1
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-41-primary
The key was successfully imported.
Importing OpenPGP key 0x31645531:
 UserID     : "Fedora (43) <fedora-43-primary@fedoraproject.org>"
 Fingerprint: C6E7F081CF80E13146676E88829B606631645531
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-43-primary
The key was successfully imported.
[  1/156] Verify package files          100% | 693.0   B/s | 154.0   B |  00m00s
>>> Running pre-transaction scriptlet: filesystem-0:3.18-29.fc42.aarch64
>>> Finished pre-transaction scriptlet: filesystem-0:3.18-29.fc42.aarch64
>>> [RPM] /var/lib/mock/fedora-rawhide-aarch64-1733998694.910381/root/var/cache/
[  2/156] Prepare transaction           100% |   2.4 KiB/s | 154.0   B |  00m00s
[  3/156] Installing libgcc-0:14.2.1-6. 100% | 109.3 MiB/s | 223.9 KiB |  00m00s
[  4/156] Installing libssh-config-0:0. 100% |   0.0   B/s | 816.0   B |  00m00s
[  5/156] Installing publicsuffix-list- 100% |  66.7 MiB/s |  68.3 KiB |  00m00s
[  6/156] Installing fedora-release-ide 100% |   0.0   B/s | 976.0   B |  00m00s
[  7/156] Installing fedora-repos-rawhi 100% |   2.4 MiB/s |   2.4 KiB |  00m00s
[  8/156] Installing fedora-gpg-keys-0: 100% |  33.6 MiB/s | 172.2 KiB |  00m00s
[  9/156] Installing fedora-repos-0:42- 100% |   0.0   B/s |   5.7 KiB |  00m00s
[ 10/156] Installing fedora-release-com 100% |  23.6 MiB/s |  24.1 KiB |  00m00s
[ 11/156] Installing fedora-release-0:4 100% |   0.0   B/s | 124.0   B |  00m00s
[ 12/156] Installing setup-0:2.15.0-5.f 100% |  44.3 MiB/s | 726.1 KiB |  00m00s
>>> [RPM] /etc/hosts created as /etc/hosts.rpmnew
[ 13/156] Installing filesystem-0:3.18- 100% |   2.5 MiB/s | 212.6 KiB |  00m00s
[ 14/156] Installing basesystem-0:11-21 100% |   0.0   B/s | 124.0   B |  00m00s
[ 15/156] Installing coreutils-common-0 100% | 310.8 MiB/s |  11.2 MiB |  00m00s
[ 16/156] Installing pcre2-syntax-0:10. 100% | 248.1 MiB/s | 254.1 KiB |  00m00s
[ 17/156] Installing pkgconf-m4-0:2.3.0 100% |  14.5 MiB/s |  14.8 KiB |  00m00s
[ 18/156] Installing ncurses-base-0:6.5 100% |  57.2 MiB/s | 351.7 KiB |  00m00s
[ 19/156] Installing bash-0:5.2.37-1.fc 100% | 355.1 MiB/s |   8.2 MiB |  00m00s
[ 20/156] Installing ncurses-libs-0:6.5 100% | 321.2 MiB/s |   2.2 MiB |  00m00s
[ 21/156] Installing glibc-minimal-lang 100% | 121.1 KiB/s | 124.0   B |  00m00s
[ 22/156] Installing glibc-common-0:2.4 100% | 187.2 MiB/s |   1.3 MiB |  00m00s
[ 23/156] Installing glibc-gconv-extra- 100% | 384.1 MiB/s |  18.4 MiB |  00m00s
[ 24/156] Installing glibc-0:2.40.9000- 100% | 236.1 MiB/s |   6.1 MiB |  00m00s
[ 25/156] Installing zlib-ng-compat-0:2 100% | 131.5 MiB/s | 134.6 KiB |  00m00s
[ 26/156] Installing xz-libs-1:5.6.3-2. 100% | 261.2 MiB/s | 267.5 KiB |  00m00s
[ 27/156] Installing bzip2-libs-0:1.0.8 100% |  70.5 MiB/s |  72.2 KiB |  00m00s
[ 28/156] Installing popt-0:1.19-7.fc41 100% |  91.0 MiB/s | 279.5 KiB |  00m00s
[ 29/156] Installing readline-0:8.2-11. 100% | 368.9 MiB/s | 755.5 KiB |  00m00s
[ 30/156] Installing libuuid-0:2.40.2-8 100% | 194.0 MiB/s | 198.6 KiB |  00m00s
[ 31/156] Installing libblkid-0:2.40.2- 100% | 409.9 MiB/s | 419.7 KiB |  00m00s
[ 32/156] Installing libattr-0:2.5.2-4. 100% | 192.9 MiB/s | 197.5 KiB |  00m00s
[ 33/156] Installing libacl-0:2.3.2-2.f 100% |  65.5 MiB/s |  67.1 KiB |  00m00s
[ 34/156] Installing libzstd-0:1.5.6-2. 100% | 259.5 MiB/s | 797.3 KiB |  00m00s
[ 35/156] Installing elfutils-libelf-0: 100% | 296.6 MiB/s |   1.2 MiB |  00m00s
[ 36/156] Installing libstdc++-0:14.2.1 100% | 307.0 MiB/s |   2.8 MiB |  00m00s
[ 37/156] Installing gmp-1:6.3.0-2.fc42 100% | 212.7 MiB/s | 653.3 KiB |  00m00s
[ 38/156] Installing libxcrypt-0:4.4.36 100% | 132.8 MiB/s | 272.0 KiB |  00m00s
[ 39/156] Installing libeconf-0:0.7.5-1 100% |  78.5 MiB/s |  80.3 KiB |  00m00s
[ 40/156] Installing gdbm-libs-1:1.23-7 100% | 227.0 MiB/s | 232.4 KiB |  00m00s
[ 41/156] Installing mpfr-0:4.2.1-5.fc4 100% | 267.1 MiB/s | 820.5 KiB |  00m00s
[ 42/156] Installing gawk-0:5.3.0-4.fc4 100% | 303.1 MiB/s |   2.4 MiB |  00m00s
[ 43/156] Installing dwz-0:0.15-8.fc42. 100% | 156.7 MiB/s | 321.0 KiB |  00m00s
[ 44/156] Installing unzip-0:6.0-65.fc4 100% | 570.7 MiB/s |   2.3 MiB |  00m00s
[ 45/156] Installing file-libs-0:5.45-8 100% | 586.0 MiB/s |  10.0 MiB |  00m00s
[ 46/156] Installing file-0:5.45-8.fc42 100% | 137.7 MiB/s | 141.0 KiB |  00m00s
[ 47/156] Installing libcap-ng-0:0.8.5- 100% | 409.3 MiB/s | 419.1 KiB |  00m00s
[ 48/156] Installing audit-libs-0:4.0.2 100% | 203.8 MiB/s | 417.3 KiB |  00m00s
[ 49/156] Installing pam-libs-0:1.7.0-3 100% | 220.4 MiB/s | 225.6 KiB |  00m00s
[ 50/156] Installing libcap-0:2.71-1.fc 100% | 167.6 MiB/s | 514.8 KiB |  00m00s
[ 51/156] Installing systemd-libs-0:257 100% | 302.8 MiB/s |   2.4 MiB |  00m00s
[ 52/156] Installing libsmartcols-0:2.4 100% | 282.9 MiB/s | 289.7 KiB |  00m00s
[ 53/156] Installing pcre2-0:10.44-1.fc 100% | 295.2 MiB/s | 906.9 KiB |  00m00s
[ 54/156] Installing grep-0:3.11-9.fc42 100% | 171.9 MiB/s |   1.0 MiB |  00m00s
[ 55/156] Installing xz-1:5.6.3-2.fc42. 100% | 215.8 MiB/s |   1.5 MiB |  00m00s
[ 56/156] Installing libsepol-0:3.8-0.r 100% | 264.0 MiB/s | 810.9 KiB |  00m00s
[ 57/156] Installing libselinux-0:3.8-0 100% |  96.1 MiB/s | 196.8 KiB |  00m00s
[ 58/156] Installing sed-0:4.9-3.fc41.a 100% | 197.2 MiB/s |   1.0 MiB |  00m00s
[ 59/156] Installing findutils-1:4.10.0 100% | 239.2 MiB/s |   1.9 MiB |  00m00s
[ 60/156] Installing libmount-0:2.40.2- 100% | 236.8 MiB/s | 485.1 KiB |  00m00s
[ 61/156] Installing lz4-libs-0:1.10.0- 100% | 256.5 MiB/s | 262.7 KiB |  00m00s
[ 62/156] Installing lua-libs-0:5.4.7-1 100% | 192.5 MiB/s | 394.3 KiB |  00m00s
[ 63/156] Installing libtasn1-0:4.19.0- 100% | 278.9 MiB/s | 285.6 KiB |  00m00s
[ 64/156] Installing alternatives-0:1.3 100% |  88.2 MiB/s |  90.3 KiB |  00m00s
[ 65/156] Installing libffi-0:3.4.6-3.f 100% | 150.3 MiB/s | 153.9 KiB |  00m00s
[ 66/156] Installing p11-kit-0:0.25.5-4 100% | 240.5 MiB/s |   2.6 MiB |  00m00s
[ 67/156] Installing libcom_err-0:1.47. 100% | 108.4 MiB/s | 111.0 KiB |  00m00s
[ 68/156] Installing libunistring-0:1.1 100% | 301.5 MiB/s |   1.8 MiB |  00m00s
[ 69/156] Installing libidn2-0:2.3.7-2. 100% |  45.2 MiB/s | 463.1 KiB |  00m00s
[ 70/156] Installing crypto-policies-0: 100% |  22.8 MiB/s | 163.7 KiB |  00m00s
[ 71/156] Installing libpsl-0:0.21.5-4. 100% | 193.1 MiB/s | 197.7 KiB |  00m00s
[ 72/156] Installing p11-kit-trust-0:0. 100% |  64.2 MiB/s | 657.4 KiB |  00m00s
[ 73/156] Installing openssl-libs-1:3.2 100% | 300.5 MiB/s |   7.2 MiB |  00m00s
[ 74/156] Installing coreutils-0:9.5-11 100% | 260.3 MiB/s |   7.8 MiB |  00m00s
[ 75/156] Installing ca-certificates-0: 100% |   1.4 MiB/s |   2.4 MiB |  00m02s
[ 76/156] Installing gzip-0:1.13-2.fc42 100% | 104.6 MiB/s | 428.3 KiB |  00m00s
[ 77/156] Installing authselect-libs-0: 100% | 122.8 MiB/s | 880.5 KiB |  00m00s
[ 78/156] Installing cracklib-0:2.9.11- 100% |  83.8 MiB/s | 429.0 KiB |  00m00s
[ 79/156] Installing libpwquality-0:1.4 100% | 184.6 MiB/s |   1.1 MiB |  00m00s
[ 80/156] Installing rpm-sequoia-0:1.7. 100% | 277.8 MiB/s |   2.2 MiB |  00m00s
[ 81/156] Installing libevent-0:2.1.12- 100% | 380.8 MiB/s |   1.5 MiB |  00m00s
[ 82/156] Installing zstd-0:1.5.6-2.fc4 100% | 281.8 MiB/s |   1.7 MiB |  00m00s
[ 83/156] Installing util-linux-core-0: 100% | 413.5 MiB/s |   6.2 MiB |  00m00s
[ 84/156] Installing tar-2:1.35-4.fc41. 100% | 278.8 MiB/s |   3.1 MiB |  00m00s
[ 85/156] Installing libsemanage-0:3.8- 100% | 115.6 MiB/s | 355.0 KiB |  00m00s
[ 86/156] Installing shadow-utils-2:4.1 100% | 190.1 MiB/s |   4.6 MiB |  00m00s
[ 87/156] Installing zip-0:3.0-42.fc42. 100% | 247.3 MiB/s | 759.6 KiB |  00m00s
[ 88/156] Installing gdbm-1:1.23-7.fc42 100% | 176.7 MiB/s | 542.8 KiB |  00m00s
[ 89/156] Installing cyrus-sasl-lib-0:2 100% | 345.2 MiB/s |   3.1 MiB |  00m00s
[ 90/156] Installing libfdisk-0:2.40.2- 100% | 236.3 MiB/s | 483.9 KiB |  00m00s
[ 91/156] Installing bzip2-0:1.0.8-19.f 100% |  84.6 MiB/s | 173.2 KiB |  00m00s
[ 92/156] Installing libxml2-0:2.12.8-2 100% | 306.0 MiB/s |   2.1 MiB |  00m00s
[ 93/156] Installing libarchive-0:3.7.7 100% | 223.2 MiB/s | 914.1 KiB |  00m00s
[ 94/156] Installing add-determinism-0: 100% | 299.6 MiB/s |   2.1 MiB |  00m00s
[ 95/156] Installing build-reproducibil 100% |   0.0   B/s |   1.0 KiB |  00m00s
[ 96/156] Installing sqlite-libs-0:3.47 100% | 283.0 MiB/s |   1.4 MiB |  00m00s
[ 97/156] Installing rpm-libs-0:4.20.0- 100% | 260.2 MiB/s | 799.4 KiB |  00m00s
[ 98/156] Installing cpio-0:2.15-2.fc42 100% | 218.5 MiB/s |   1.1 MiB |  00m00s
[ 99/156] Installing diffutils-0:3.10-8 100% | 237.7 MiB/s |   1.7 MiB |  00m00s
[100/156] Installing libgomp-0:14.2.1-6 100% | 246.4 MiB/s | 504.6 KiB |  00m00s
[101/156] Installing libpkgconf-0:2.3.0 100% | 194.6 MiB/s | 199.2 KiB |  00m00s
[102/156] Installing pkgconf-0:2.3.0-1. 100% | 237.4 MiB/s | 243.1 KiB |  00m00s
[103/156] Installing pkgconf-pkg-config 100% |   0.0   B/s |   1.8 KiB |  00m00s
[104/156] Installing ed-0:1.20.2-2.fc42 100% | 151.5 MiB/s | 155.2 KiB |  00m00s
[105/156] Installing patch-0:2.7.6-25.f 100% | 191.5 MiB/s | 392.1 KiB |  00m00s
[106/156] Installing libverto-0:0.3.2-9 100% | 194.7 MiB/s | 199.3 KiB |  00m00s
[107/156] Installing keyutils-libs-0:1. 100% |  95.9 MiB/s |  98.2 KiB |  00m00s
[108/156] Installing krb5-libs-0:1.21.3 100% | 259.9 MiB/s |   2.6 MiB |  00m00s
[109/156] Installing libtirpc-0:1.3.6-1 100% | 202.4 MiB/s | 207.3 KiB |  00m00s
[110/156] Installing libnsl2-0:2.0.1-2. 100% | 109.0 MiB/s | 223.2 KiB |  00m00s
[111/156] Installing pam-0:1.7.0-3.fc42 100% | 226.4 MiB/s |   4.3 MiB |  00m00s
[112/156] Installing libssh-0:0.11.1-1. 100% | 212.1 MiB/s | 651.7 KiB |  00m00s
[113/156] Installing jansson-0:2.14-1.f 100% |  90.0 MiB/s |  92.2 KiB |  00m00s
[114/156] Installing json-c-0:0.18-1.fc 100% | 133.7 MiB/s | 137.0 KiB |  00m00s
[115/156] Installing xxhash-libs-0:0.8. 100% | 208.7 MiB/s | 213.7 KiB |  00m00s
[116/156] Installing libnghttp2-0:1.64. 100% | 257.1 MiB/s | 263.3 KiB |  00m00s
[117/156] Installing libtool-ltdl-0:2.5 100% |  91.0 MiB/s |  93.2 KiB |  00m00s
[118/156] Installing openldap-0:2.6.8-6 100% | 244.4 MiB/s | 750.8 KiB |  00m00s
[119/156] Installing libbrotli-0:1.1.0- 100% | 221.3 MiB/s | 906.6 KiB |  00m00s
[120/156] Installing libcurl-0:8.11.1-1 100% | 275.5 MiB/s | 846.3 KiB |  00m00s
[121/156] Installing curl-0:8.11.1-1.fc 100% |  40.3 MiB/s | 454.4 KiB |  00m00s
[122/156] Installing rpm-0:4.20.0-1.fc4 100% | 159.9 MiB/s |   3.4 MiB |  00m00s
[123/156] Installing efi-srpm-macros-0: 100% |  40.2 MiB/s |  41.2 KiB |  00m00s
[124/156] Installing lua-srpm-macros-0: 100% |   0.0   B/s |   1.9 KiB |  00m00s
[125/156] Installing zig-srpm-macros-0: 100% |   0.0   B/s |   1.7 KiB |  00m00s
[126/156] Installing elfutils-default-y 100% | 340.5 KiB/s |   2.0 KiB |  00m00s
[127/156] Installing elfutils-libs-0:0. 100% | 179.8 MiB/s | 736.6 KiB |  00m00s
[128/156] Installing elfutils-debuginfo 100% |  70.1 MiB/s | 143.5 KiB |  00m00s
[129/156] Installing binutils-0:2.43.50 100% | 329.0 MiB/s |  29.0 MiB |  00m00s
[130/156] Installing elfutils-0:0.192-7 100% | 281.5 MiB/s |   3.1 MiB |  00m00s
[131/156] Installing gdb-minimal-0:15.2 100% | 324.8 MiB/s |  12.7 MiB |  00m00s
[132/156] Installing debugedit-0:5.1-2. 100% | 119.2 MiB/s | 244.2 KiB |  00m00s
[133/156] Installing rpm-build-libs-0:4 100% | 257.4 MiB/s | 263.6 KiB |  00m00s
[134/156] Installing rust-srpm-macros-0 100% |   0.0   B/s |   5.6 KiB |  00m00s
[135/156] Installing qt6-srpm-macros-0: 100% |   0.0   B/s | 732.0   B |  00m00s
[136/156] Installing qt5-srpm-macros-0: 100% |   0.0   B/s | 776.0   B |  00m00s
[137/156] Installing perl-srpm-macros-0 100% |   0.0   B/s |   1.1 KiB |  00m00s
[138/156] Installing package-notes-srpm 100% |   0.0   B/s |   2.0 KiB |  00m00s
[139/156] Installing openblas-srpm-macr 100% |   0.0   B/s | 392.0   B |  00m00s
[140/156] Installing ocaml-srpm-macros- 100% |   0.0   B/s |   2.2 KiB |  00m00s
[141/156] Installing kernel-srpm-macros 100% |   0.0   B/s |   2.3 KiB |  00m00s
[142/156] Installing gnat-srpm-macros-0 100% |   0.0   B/s |   1.3 KiB |  00m00s
[143/156] Installing ghc-srpm-macros-0: 100% |   0.0   B/s |   1.0 KiB |  00m00s
[144/156] Installing fpc-srpm-macros-0: 100% |   0.0   B/s | 420.0   B |  00m00s
[145/156] Installing ansible-srpm-macro 100% |   0.0   B/s |  36.2 KiB |  00m00s
[146/156] Installing fonts-srpm-macros- 100% |  55.7 MiB/s |  57.0 KiB |  00m00s
[147/156] Installing forge-srpm-macros- 100% |  39.3 MiB/s |  40.3 KiB |  00m00s
[148/156] Installing go-srpm-macros-0:3 100% |  60.5 MiB/s |  62.0 KiB |  00m00s
[149/156] Installing python-srpm-macros 100% |  50.9 MiB/s |  52.2 KiB |  00m00s
[150/156] Installing redhat-rpm-config- 100% |  62.9 MiB/s | 193.2 KiB |  00m00s
[151/156] Installing rpm-build-0:4.20.0 100% | 349.3 MiB/s |   1.4 MiB |  00m00s
[152/156] Installing pyproject-srpm-mac 100% |   1.2 MiB/s |   2.5 KiB |  00m00s
[153/156] Installing util-linux-0:2.40. 100% | 376.7 MiB/s |  17.0 MiB |  00m00s
[154/156] Installing authselect-0:1.5.0 100% |  60.0 MiB/s | 184.3 KiB |  00m00s
[155/156] Installing which-0:2.21-42.fc 100% | 122.2 MiB/s | 250.4 KiB |  00m00s
[156/156] Installing info-0:7.1.1-2.fc4 100% | 285.5 KiB/s | 614.0 KiB |  00m02s
Warning: skipped OpenPGP checks for 41 packages from repository: copr_base
Complete!
Finish: installing minimal buildroot with dnf5
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
INFO: add-determinism-0.4.3-1.fc42.aarch64
alternatives-1.30-1.fc42.aarch64
ansible-srpm-macros-1-16.fc41.noarch
audit-libs-4.0.2-1.fc42.aarch64
authselect-1.5.0-8.fc42.aarch64
authselect-libs-1.5.0-8.fc42.aarch64
basesystem-11-21.fc41.noarch
bash-5.2.37-1.fc42.aarch64
binutils-2.43.50-9.fc42.aarch64
build-reproducibility-srpm-macros-0.4.3-1.fc42.noarch
bzip2-1.0.8-19.fc42.aarch64
bzip2-libs-1.0.8-19.fc42.aarch64
ca-certificates-2024.2.69_v8.0.401-3.fc42.noarch
coreutils-9.5-11.fc42.aarch64
coreutils-common-9.5-11.fc42.aarch64
cpio-2.15-2.fc42.aarch64
cracklib-2.9.11-6.fc42.aarch64
crypto-policies-20241128-1.gitbb7b0b0.fc42.noarch
curl-8.11.1-1.fc42.aarch64
cyrus-sasl-lib-2.1.28-27.fc41.aarch64
debugedit-5.1-2.fc42.aarch64
diffutils-3.10-8.fc42.aarch64
dwz-0.15-8.fc42.aarch64
ed-1.20.2-2.fc42.aarch64
efi-srpm-macros-5-13.fc42.noarch
elfutils-0.192-7.fc42.aarch64
elfutils-debuginfod-client-0.192-7.fc42.aarch64
elfutils-default-yama-scope-0.192-7.fc42.noarch
elfutils-libelf-0.192-7.fc42.aarch64
elfutils-libs-0.192-7.fc42.aarch64
fedora-gpg-keys-42-0.3.noarch
fedora-release-42-0.11.noarch
fedora-release-common-42-0.11.noarch
fedora-release-identity-basic-42-0.11.noarch
fedora-repos-42-0.3.noarch
fedora-repos-rawhide-42-0.3.noarch
file-5.45-8.fc42.aarch64
file-libs-5.45-8.fc42.aarch64
filesystem-3.18-29.fc42.aarch64
findutils-4.10.0-4.fc42.aarch64
fonts-srpm-macros-2.0.5-17.fc41.noarch
forge-srpm-macros-0.4.0-1.fc42.noarch
fpc-srpm-macros-1.3-13.fc41.noarch
gawk-5.3.0-4.fc42.aarch64
gdb-minimal-15.2-4.fc42.aarch64
gdbm-1.23-7.fc42.aarch64
gdbm-libs-1.23-7.fc42.aarch64
ghc-srpm-macros-1.9.2-1.fc42.noarch
glibc-2.40.9000-21.fc42.aarch64
glibc-common-2.40.9000-21.fc42.aarch64
glibc-gconv-extra-2.40.9000-21.fc42.aarch64
glibc-minimal-langpack-2.40.9000-21.fc42.aarch64
gmp-6.3.0-2.fc42.aarch64
gnat-srpm-macros-6-6.fc41.noarch
go-srpm-macros-3.6.0-5.fc42.noarch
gpg-pubkey-105ef944-65ca83d1
gpg-pubkey-31645531-66b6dccf
gpg-pubkey-e99d6ad1-64d2612c
grep-3.11-9.fc42.aarch64
gzip-1.13-2.fc42.aarch64
info-7.1.1-2.fc42.aarch64
jansson-2.14-1.fc42.aarch64
json-c-0.18-1.fc42.aarch64
kernel-srpm-macros-1.0-24.fc41.noarch
keyutils-libs-1.6.3-4.fc42.aarch64
krb5-libs-1.21.3-3.fc42.aarch64
libacl-2.3.2-2.fc42.aarch64
libarchive-3.7.7-1.fc42.aarch64
libattr-2.5.2-4.fc41.aarch64
libblkid-2.40.2-8.fc42.aarch64
libbrotli-1.1.0-5.fc42.aarch64
libcap-2.71-1.fc42.aarch64
libcap-ng-0.8.5-3.fc41.aarch64
libcom_err-1.47.1-6.fc42.aarch64
libcurl-8.11.1-1.fc42.aarch64
libeconf-0.7.5-1.fc42.aarch64
libevent-2.1.12-14.fc41.aarch64
libfdisk-2.40.2-8.fc42.aarch64
libffi-3.4.6-3.fc42.aarch64
libgcc-14.2.1-6.fc42.aarch64
libgomp-14.2.1-6.fc42.aarch64
libidn2-2.3.7-2.fc41.aarch64
libmount-2.40.2-8.fc42.aarch64
libnghttp2-1.64.0-1.fc42.aarch64
libnsl2-2.0.1-2.fc41.aarch64
libpkgconf-2.3.0-1.fc42.aarch64
libpsl-0.21.5-4.fc41.aarch64
libpwquality-1.4.5-11.fc41.aarch64
libselinux-3.8-0.rc1.2.fc42.aarch64
libsemanage-3.8-0.rc1.1.fc42.aarch64
libsepol-3.8-0.rc1.1.fc42.aarch64
libsmartcols-2.40.2-8.fc42.aarch64
libssh-0.11.1-1.fc42.aarch64
libssh-config-0.11.1-1.fc42.noarch
libstdc++-14.2.1-6.fc42.aarch64
libtasn1-4.19.0-9.fc41.aarch64
libtirpc-1.3.6-1.fc42.aarch64
libtool-ltdl-2.5.4-1.fc42.aarch64
libunistring-1.1-8.fc41.aarch64
libuuid-2.40.2-8.fc42.aarch64
libverto-0.3.2-9.fc41.aarch64
libxcrypt-4.4.36-11.fc42.aarch64
libxml2-2.12.8-2.fc41.aarch64
libzstd-1.5.6-2.fc41.aarch64
lua-libs-5.4.7-1.fc42.aarch64
lua-srpm-macros-1-14.fc41.noarch
lz4-libs-1.10.0-1.fc41.aarch64
mpfr-4.2.1-5.fc41.aarch64
ncurses-base-6.5-2.20240629.fc41.noarch
ncurses-libs-6.5-2.20240629.fc41.aarch64
ocaml-srpm-macros-10-3.fc41.noarch
openblas-srpm-macros-2-18.fc41.noarch
openldap-2.6.8-6.fc42.aarch64
openssl-libs-3.2.2-8.fc42.aarch64
p11-kit-0.25.5-4.fc42.aarch64
p11-kit-trust-0.25.5-4.fc42.aarch64
package-notes-srpm-macros-0.5-12.fc41.noarch
pam-1.7.0-3.fc42.aarch64
pam-libs-1.7.0-3.fc42.aarch64
patch-2.7.6-25.fc41.aarch64
pcre2-10.44-1.fc41.1.aarch64
pcre2-syntax-10.44-1.fc41.1.noarch
perl-srpm-macros-1-56.fc41.noarch
pkgconf-2.3.0-1.fc42.aarch64
pkgconf-m4-2.3.0-1.fc42.noarch
pkgconf-pkg-config-2.3.0-1.fc42.aarch64
popt-1.19-7.fc41.aarch64
publicsuffix-list-dafsa-20240107-4.fc41.noarch
pyproject-srpm-macros-1.16.3-1.fc42.noarch
python-srpm-macros-3.13-3.fc41.noarch
qt5-srpm-macros-5.15.15-1.fc42.noarch
qt6-srpm-macros-6.8.1-4.fc42.noarch
readline-8.2-11.fc42.aarch64
redhat-rpm-config-296-1.fc42.noarch
rpm-4.20.0-1.fc42.aarch64
rpm-build-4.20.0-1.fc42.aarch64
rpm-build-libs-4.20.0-1.fc42.aarch64
rpm-libs-4.20.0-1.fc42.aarch64
rpm-sequoia-1.7.0-3.fc42.aarch64
rust-srpm-macros-26.3-3.fc42.noarch
sed-4.9-3.fc41.aarch64
setup-2.15.0-5.fc41.noarch
shadow-utils-4.17.0~rc1-1.fc42.aarch64
sqlite-libs-3.47.2-1.fc42.aarch64
systemd-libs-257-1.fc42.aarch64
tar-1.35-4.fc41.aarch64
unzip-6.0-65.fc42.aarch64
util-linux-2.40.2-8.fc42.aarch64
util-linux-core-2.40.2-8.fc42.aarch64
which-2.21-42.fc41.aarch64
xxhash-libs-0.8.2-4.fc42.aarch64
xz-5.6.3-2.fc42.aarch64
xz-libs-5.6.3-2.fc42.aarch64
zig-srpm-macros-1-3.fc41.noarch
zip-3.0-42.fc42.aarch64
zlib-ng-compat-2.2.2-1.fc42.aarch64
zstd-1.5.6-2.fc41.aarch64
Start: buildsrpm
Start: rpmbuild -bs
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1721260800
Wrote: /builddir/build/SRPMS/mmseq-1.0.11-20.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-aarch64-1733998694.910381/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-h3w0ig13/mmseq/mmseq.spec) Config(child) 0 minutes 19 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-1.0.11-20.fc42.src.rpm)  Config(fedora-rawhide-aarch64)
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1733998694.910381/root.
INFO: reusing tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1733998694.910381/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start(bootstrap): cleaning package manager metadata
Finish(bootstrap): cleaning package manager metadata
Finish(bootstrap): chroot init
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-1733998694.910381/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.aarch64
  rpm-sequoia-1.7.0-3.fc42.aarch64
  dnf5-5.2.8.1-2.fc42.aarch64
  dnf5-plugins-5.2.8.1-2.fc42.aarch64
Finish: chroot init
Start: build phase for mmseq-1.0.11-20.fc42.src.rpm
Start: build setup for mmseq-1.0.11-20.fc42.src.rpm
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1721260800
Wrote: /builddir/build/SRPMS/mmseq-1.0.11-20.fc42.src.rpm
Updating and loading repositories:
 fedora                                 100% | 142.4 KiB/s |  14.0 KiB |  00m00s
 Copr repository                        100% |  18.7 KiB/s |   1.5 KiB |  00m00s
Repositories loaded.
Package                      Arch    Version                           Repository      Size
Installing:
 armadillo-devel             aarch64 12.8.1-5.fc42                     copr_base    7.3 MiB
 boost-devel                 aarch64 1.83.0-9.fc42                     fedora     143.0 MiB
 flexiblas-devel             aarch64 3.4.4-3.fc42                      copr_base    4.9 MiB
 gcc-c++                     aarch64 14.2.1-6.fc42                     fedora      36.8 MiB
 gsl-devel                   aarch64 2.7.1-11.fc42                     copr_base    1.6 MiB
 htslib-devel                aarch64 1.15.1-6.fc42                     copr_base  411.0 KiB
 make                        aarch64 1:4.4.1-9.fc42                    fedora       1.8 MiB
 perl-generators             noarch  1.16-6.fc41                       fedora      21.8 KiB
 zlib-ng-compat-devel        aarch64 2.2.2-1.fc42                      fedora     106.8 KiB
Installing dependencies:
 SuperLU                     aarch64 7.0.0-1.fc42                      copr_base  453.3 KiB
 SuperLU-devel               aarch64 7.0.0-1.fc42                      copr_base  103.5 KiB
 annobin-docs                noarch  12.79-1.fc42                      fedora      98.6 KiB
 annobin-plugin-gcc          aarch64 12.79-1.fc42                      fedora     997.2 KiB
 armadillo                   aarch64 12.8.1-5.fc42                     copr_base  142.5 KiB
 arpack                      aarch64 3.9.1-4.fc42                      copr_base  550.0 KiB
 arpack-devel                aarch64 3.9.1-4.fc42                      copr_base   69.1 KiB
 autoconf                    noarch  2.72-3.fc42                       copr_base    2.8 MiB
 automake                    noarch  1.17-1.fc42                       copr_base    1.8 MiB
 boost                       aarch64 1.83.0-9.fc42                     fedora       1.3 KiB
 boost-atomic                aarch64 1.83.0-9.fc42                     fedora      67.6 KiB
 boost-chrono                aarch64 1.83.0-9.fc42                     fedora      67.7 KiB
 boost-container             aarch64 1.83.0-9.fc42                     fedora      67.7 KiB
 boost-context               aarch64 1.83.0-9.fc42                     fedora      67.4 KiB
 boost-contract              aarch64 1.83.0-9.fc42                     fedora     131.8 KiB
 boost-coroutine             aarch64 1.83.0-9.fc42                     fedora      67.7 KiB
 boost-date-time             aarch64 1.83.0-9.fc42                     fedora      67.3 KiB
 boost-fiber                 aarch64 1.83.0-9.fc42                     fedora     131.8 KiB
 boost-filesystem            aarch64 1.83.0-9.fc42                     fedora     132.0 KiB
 boost-graph                 aarch64 1.83.0-9.fc42                     fedora     324.2 KiB
 boost-iostreams             aarch64 1.83.0-9.fc42                     fedora     131.7 KiB
 boost-json                  aarch64 1.83.0-9.fc42                     fedora     324.0 KiB
 boost-locale                aarch64 1.83.0-9.fc42                     fedora     580.4 KiB
 boost-log                   aarch64 1.83.0-9.fc42                     fedora       1.4 MiB
 boost-math                  aarch64 1.83.0-9.fc42                     fedora     847.2 KiB
 boost-nowide                aarch64 1.83.0-9.fc42                     fedora      67.7 KiB
 boost-numpy3                aarch64 1.83.0-9.fc42                     fedora      67.7 KiB
 boost-program-options       aarch64 1.83.0-9.fc42                     fedora     259.7 KiB
 boost-python3               aarch64 1.83.0-9.fc42                     fedora     263.1 KiB
 boost-random                aarch64 1.83.0-9.fc42                     fedora      67.7 KiB
 boost-regex                 aarch64 1.83.0-9.fc42                     fedora     259.7 KiB
 boost-serialization         aarch64 1.83.0-9.fc42                     fedora     454.1 KiB
 boost-stacktrace            aarch64 1.83.0-9.fc42                     fedora     200.0 KiB
 boost-system                aarch64 1.83.0-9.fc42                     fedora      67.3 KiB
 boost-test                  aarch64 1.83.0-9.fc42                     fedora     646.6 KiB
 boost-thread                aarch64 1.83.0-9.fc42                     fedora     131.8 KiB
 boost-timer                 aarch64 1.83.0-9.fc42                     fedora      67.7 KiB
 boost-type_erasure          aarch64 1.83.0-9.fc42                     fedora      67.7 KiB
 boost-wave                  aarch64 1.83.0-9.fc42                     fedora     644.4 KiB
 cmake-filesystem            aarch64 3.31.2-1.fc42                     fedora       0.0   B
 cpp                         aarch64 14.2.1-6.fc42                     fedora      33.7 MiB
 emacs-filesystem            noarch  1:30.0-3.fc41                     fedora       0.0   B
 expat                       aarch64 2.6.4-1.fc42                      copr_base  343.6 KiB
 flexiblas                   aarch64 3.4.4-3.fc42                      copr_base   48.5 KiB
 flexiblas-netlib            aarch64 3.4.4-3.fc42                      copr_base    9.2 MiB
 flexiblas-netlib64          aarch64 3.4.4-3.fc42                      copr_base    9.1 MiB
 flexiblas-openblas-openmp   aarch64 3.4.4-3.fc42                      copr_base   66.3 KiB
 flexiblas-openblas-openmp64 aarch64 3.4.4-3.fc42                      copr_base   66.3 KiB
 gcc                         aarch64 14.2.1-6.fc42                     fedora      96.6 MiB
 gcc-gfortran                aarch64 14.2.1-6.fc42                     fedora      35.7 MiB
 gcc-plugin-annobin          aarch64 14.2.1-6.fc42                     fedora      73.5 KiB
 glibc-devel                 aarch64 2.40.9000-21.fc42                 copr_base    2.2 MiB
 groff-base                  aarch64 1.23.0-7.fc42                     copr_base    4.1 MiB
 gsl                         aarch64 2.7.1-11.fc42                     copr_base    3.3 MiB
 hdf5                        aarch64 1.14.5-1.fc42                     copr_base    8.0 MiB
 hdf5-devel                  aarch64 1.14.5-1.fc42                     copr_base    3.2 MiB
 htslib                      aarch64 1.15.1-6.fc42                     copr_base    1.2 MiB
 kernel-headers              aarch64 6.13.0-0.rc1.e70140ba0d2b.14.fc42 fedora       6.4 MiB
 libaec                      aarch64 1.1.3-1.fc42                      fedora     410.2 KiB
 libaec-devel                aarch64 1.1.3-1.fc42                      fedora      12.5 KiB
 libasan                     aarch64 14.2.1-6.fc42                     fedora       1.5 MiB
 libatomic                   aarch64 14.2.1-6.fc42                     fedora      69.0 KiB
 libb2                       aarch64 0.98.1-12.fc41                    fedora     202.2 KiB
 libgfortran                 aarch64 14.2.1-6.fc42                     fedora       1.5 MiB
 libicu                      aarch64 76.1-1.fc42                       fedora      36.5 MiB
 libicu-devel                aarch64 76.1-1.fc42                       fedora       5.1 MiB
 libmpc                      aarch64 1.3.1-6.fc41                      fedora     280.8 KiB
 libstdc++-devel             aarch64 14.2.1-6.fc42                     fedora      15.1 MiB
 libubsan                    aarch64 14.2.1-6.fc42                     fedora     475.2 KiB
 libxcrypt-devel             aarch64 4.4.36-11.fc42                    copr_base   30.5 KiB
 m4                          aarch64 1.4.19-10.fc42                    copr_base  599.6 KiB
 metis                       aarch64 5.1.0.3-6.fc41                    fedora       2.0 MiB
 mpdecimal                   aarch64 2.5.1-16.fc41                     fedora     328.9 KiB
 ncurses                     aarch64 6.5-2.20240629.fc41               fedora       1.7 MiB
 openblas                    aarch64 0.3.28-2.fc42                     fedora     106.6 KiB
 openblas-openmp             aarch64 0.3.28-2.fc42                     fedora      20.6 MiB
 openblas-openmp64           aarch64 0.3.28-2.fc42                     fedora      20.4 MiB
 perl-AutoLoader             noarch  5.74-512.fc42                     fedora      20.5 KiB
 perl-B                      aarch64 1.89-512.fc42                     fedora     606.1 KiB
 perl-Carp                   noarch  1.54-511.fc41                     fedora      46.6 KiB
 perl-Class-Struct           noarch  0.68-512.fc42                     fedora      25.4 KiB
 perl-Data-Dumper            aarch64 2.189-512.fc41                    fedora     263.8 KiB
 perl-Digest                 noarch  1.20-511.fc41                     fedora      35.3 KiB
 perl-Digest-MD5             aarch64 2.59-5.fc41                       fedora     231.9 KiB
 perl-DynaLoader             aarch64 1.56-512.fc42                     fedora      32.1 KiB
 perl-Encode                 aarch64 4:3.21-511.fc41                   fedora       5.9 MiB
 perl-Errno                  aarch64 1.38-512.fc42                     fedora       8.4 KiB
 perl-Exporter               noarch  5.78-511.fc41                     fedora      54.3 KiB
 perl-Fcntl                  aarch64 1.18-512.fc42                     fedora     221.1 KiB
 perl-Fedora-VSP             noarch  0.001-35.fc41                     fedora      39.7 KiB
 perl-File-Basename          noarch  2.86-512.fc42                     fedora      14.0 KiB
 perl-File-Compare           noarch  1.100.800-512.fc42                fedora       5.6 KiB
 perl-File-Copy              noarch  2.41-512.fc42                     fedora      19.6 KiB
 perl-File-Find              noarch  1.44-512.fc42                     fedora      41.9 KiB
 perl-File-Path              noarch  2.18-511.fc41                     fedora      63.5 KiB
 perl-File-Temp              noarch  1:0.231.100-511.fc41              fedora     162.3 KiB
 perl-File-stat              noarch  1.14-512.fc42                     fedora      12.5 KiB
 perl-FileHandle             noarch  2.05-512.fc42                     fedora       9.3 KiB
 perl-Getopt-Long            noarch  1:2.58-2.fc41                     fedora     144.5 KiB
 perl-Getopt-Std             noarch  1.14-512.fc42                     fedora      11.2 KiB
 perl-HTTP-Tiny              noarch  0.090-1.fc42                      fedora     154.4 KiB
 perl-IO                     aarch64 1.55-512.fc42                     fedora     319.2 KiB
 perl-IO-Socket-IP           noarch  0.43-1.fc42                       fedora     100.3 KiB
 perl-IO-Socket-SSL          noarch  2.089-1.fc42                      fedora     703.3 KiB
 perl-IPC-Open3              noarch  1.22-512.fc42                     fedora      22.5 KiB
 perl-MIME-Base32            noarch  1.303-21.fc41                     fedora      30.7 KiB
 perl-MIME-Base64            aarch64 3.16-511.fc41                     fedora     222.2 KiB
 perl-Net-SSLeay             aarch64 1.94-7.fc41                       fedora       1.4 MiB
 perl-POSIX                  aarch64 2.20-512.fc42                     fedora     327.3 KiB
 perl-PathTools              aarch64 3.91-511.fc41                     fedora     352.1 KiB
 perl-Pod-Escapes            noarch  1:1.07-511.fc41                   fedora      24.9 KiB
 perl-Pod-Perldoc            noarch  3.28.01-512.fc41                  fedora     163.7 KiB
 perl-Pod-Simple             noarch  1:3.45-511.fc41                   fedora     560.9 KiB
 perl-Pod-Usage              noarch  4:2.03-511.fc41                   fedora      84.8 KiB
 perl-Scalar-List-Utils      aarch64 5:1.68-1.fc42                     fedora     281.0 KiB
 perl-SelectSaver            noarch  1.02-512.fc42                     fedora       2.2 KiB
 perl-Socket                 aarch64 4:2.038-511.fc41                  fedora     272.1 KiB
 perl-Storable               aarch64 1:3.32-511.fc41                   fedora     372.5 KiB
 perl-Symbol                 noarch  1.09-512.fc42                     fedora       6.8 KiB
 perl-Term-ANSIColor         noarch  5.01-512.fc41                     fedora      97.5 KiB
 perl-Term-Cap               noarch  1.18-511.fc41                     fedora      29.3 KiB
 perl-Text-ParseWords        noarch  3.31-511.fc41                     fedora      13.6 KiB
 perl-Text-Tabs+Wrap         noarch  2024.001-511.fc41                 fedora      22.6 KiB
 perl-Thread-Queue           noarch  3.14-511.fc41                     fedora      28.9 KiB
 perl-Time-Local             noarch  2:1.350-511.fc41                  fedora      69.0 KiB
 perl-URI                    noarch  5.31-1.fc42                       fedora     257.0 KiB
 perl-base                   noarch  2.27-512.fc42                     fedora      12.5 KiB
 perl-constant               noarch  1.33-512.fc41                     fedora      26.2 KiB
 perl-if                     noarch  0.61.000-512.fc42                 fedora       5.8 KiB
 perl-interpreter            aarch64 4:5.40.0-512.fc42                 fedora     302.3 KiB
 perl-libnet                 noarch  3.15-512.fc41                     fedora     289.4 KiB
 perl-libs                   aarch64 4:5.40.0-512.fc42                 fedora      10.9 MiB
 perl-locale                 noarch  1.12-512.fc42                     fedora       6.5 KiB
 perl-macros                 noarch  4:5.40.0-512.fc42                 fedora       5.5 KiB
 perl-mro                    aarch64 1.29-512.fc42                     fedora     209.7 KiB
 perl-overload               noarch  1.37-512.fc42                     fedora      71.5 KiB
 perl-overloading            noarch  0.02-512.fc42                     fedora       4.8 KiB
 perl-parent                 noarch  1:0.243-1.fc42                    fedora      10.2 KiB
 perl-podlators              noarch  1:6.0.2-2.fc41                    fedora     317.5 KiB
 perl-threads                aarch64 1:2.40-511.fc41                   fedora     263.2 KiB
 perl-threads-shared         aarch64 1.69-511.fc41                     fedora     231.8 KiB
 perl-vars                   noarch  1.05-512.fc42                     fedora       3.9 KiB
 python-pip-wheel            noarch  24.3.1-1.fc42                     fedora       1.2 MiB
 python3                     aarch64 3.13.1-2.fc42                     fedora      82.5 KiB
 python3-libs                aarch64 3.13.1-2.fc42                     fedora      41.7 MiB
 python3-numpy               aarch64 1:1.26.4-8.fc41                   fedora      41.2 MiB
 tzdata                      noarch  2024a-9.fc41                      fedora       1.7 MiB

Transaction Summary:
 Installing:       156 packages

Total size of inbound packages is 155 MiB. Need to download 155 MiB.
After this operation, 643 MiB extra will be used (install 643 MiB, remove 0 B).
[  1/156] perl-generators-0:1.16-6.fc41 100% |   1.1 MiB/s |  16.5 KiB |  00m00s
[  2/156] make-1:4.4.1-9.fc42.aarch64   100% |  33.6 MiB/s | 584.6 KiB |  00m00s
[  3/156] zlib-ng-compat-devel-0:2.2.2- 100% |   7.4 MiB/s |  38.1 KiB |  00m00s
[  4/156] armadillo-devel-0:12.8.1-5.fc 100% |  92.9 MiB/s |   2.0 MiB |  00m00s
[  5/156] flexiblas-devel-0:3.4.4-3.fc4 100% |  54.1 MiB/s | 110.8 KiB |  00m00s
[  6/156] gsl-devel-0:2.7.1-11.fc42.aar 100% |  99.3 MiB/s | 610.1 KiB |  00m00s
[  7/156] gcc-c++-0:14.2.1-6.fc42.aarch 100% | 171.7 MiB/s |  12.9 MiB |  00m00s
[  8/156] boost-devel-0:1.83.0-9.fc42.a 100% | 184.1 MiB/s |  14.2 MiB |  00m00s
[  9/156] libmpc-0:1.3.1-6.fc41.aarch64 100% |   2.7 MiB/s |  72.7 KiB |  00m00s
[ 10/156] gcc-0:14.2.1-6.fc42.aarch64   100% | 291.1 MiB/s |  33.8 MiB |  00m00s
[ 11/156] htslib-devel-0:1.15.1-6.fc42. 100% | 706.1 KiB/s |  99.6 KiB |  00m00s
[ 12/156] libstdc++-devel-0:14.2.1-6.fc 100% |  38.7 MiB/s |   2.7 MiB |  00m00s
[ 13/156] perl-File-Basename-0:2.86-512 100% |   5.6 MiB/s |  17.1 KiB |  00m00s
[ 14/156] perl-Fedora-VSP-0:0.001-35.fc 100% |   5.6 MiB/s |  23.0 KiB |  00m00s
[ 15/156] boost-0:1.83.0-9.fc42.aarch64 100% |  12.6 MiB/s |  12.9 KiB |  00m00s
[ 16/156] perl-macros-4:5.40.0-512.fc42 100% |   6.0 MiB/s |  12.3 KiB |  00m00s
[ 17/156] perl-interpreter-4:5.40.0-512 100% |  35.3 MiB/s |  72.4 KiB |  00m00s
[ 18/156] boost-numpy3-0:1.83.0-9.fc42. 100% |  25.1 MiB/s |  25.7 KiB |  00m00s
[ 19/156] flexiblas-0:3.4.4-3.fc42.aarc 100% |  25.2 MiB/s |  25.8 KiB |  00m00s
[ 20/156] flexiblas-netlib64-0:3.4.4-3. 100% | 203.9 MiB/s |   2.7 MiB |  00m00s
[ 21/156] flexiblas-netlib-0:3.4.4-3.fc 100% | 152.4 MiB/s |   2.7 MiB |  00m00s
[ 22/156] gsl-0:2.7.1-11.fc42.aarch64   100% |  55.5 MiB/s |   1.0 MiB |  00m00s
[ 23/156] libasan-0:14.2.1-6.fc42.aarch 100% |  40.5 MiB/s | 498.1 KiB |  00m00s
[ 24/156] cpp-0:14.2.1-6.fc42.aarch64   100% | 345.3 MiB/s |  10.7 MiB |  00m00s
[ 25/156] libatomic-0:14.2.1-6.fc42.aar 100% |   2.6 MiB/s |  45.8 KiB |  00m00s
[ 26/156] libubsan-0:14.2.1-6.fc42.aarc 100% |  71.7 MiB/s | 220.1 KiB |  00m00s
[ 27/156] perl-Carp-0:1.54-511.fc41.noa 100% |  14.1 MiB/s |  28.9 KiB |  00m00s
[ 28/156] perl-libs-4:5.40.0-512.fc42.a 100% | 228.9 MiB/s |   2.3 MiB |  00m00s
[ 29/156] perl-Exporter-0:5.78-511.fc41 100% |   6.0 MiB/s |  30.9 KiB |  00m00s
[ 30/156] boost-atomic-0:1.83.0-9.fc42. 100% |   8.2 MiB/s |  16.9 KiB |  00m00s
[ 31/156] boost-chrono-0:1.83.0-9.fc42. 100% |  11.0 MiB/s |  22.5 KiB |  00m00s
[ 32/156] boost-container-0:1.83.0-9.fc 100% |  17.9 MiB/s |  36.6 KiB |  00m00s
[ 33/156] boost-context-0:1.83.0-9.fc42 100% |   7.2 MiB/s |  14.8 KiB |  00m00s
[ 34/156] boost-contract-0:1.83.0-9.fc4 100% |  19.1 MiB/s |  39.1 KiB |  00m00s
[ 35/156] boost-coroutine-0:1.83.0-9.fc 100% |   8.7 MiB/s |  17.9 KiB |  00m00s
[ 36/156] boost-date-time-0:1.83.0-9.fc 100% |  13.3 MiB/s |  13.6 KiB |  00m00s
[ 37/156] boost-fiber-0:1.83.0-9.fc42.a 100% |  37.3 MiB/s |  38.2 KiB |  00m00s
[ 38/156] boost-filesystem-0:1.83.0-9.f 100% |  29.5 MiB/s |  60.4 KiB |  00m00s
[ 39/156] boost-graph-0:1.83.0-9.fc42.a 100% |  42.6 MiB/s | 130.8 KiB |  00m00s
[ 40/156] boost-iostreams-0:1.83.0-9.fc 100% |  35.2 MiB/s |  36.0 KiB |  00m00s
[ 41/156] boost-json-0:1.83.0-9.fc42.aa 100% |  66.0 MiB/s | 135.2 KiB |  00m00s
[ 42/156] boost-locale-0:1.83.0-9.fc42. 100% |  60.8 MiB/s | 186.7 KiB |  00m00s
[ 43/156] boost-log-0:1.83.0-9.fc42.aar 100% | 132.9 MiB/s | 408.2 KiB |  00m00s
[ 44/156] boost-math-0:1.83.0-9.fc42.aa 100% |  82.8 MiB/s | 254.2 KiB |  00m00s
[ 45/156] boost-nowide-0:1.83.0-9.fc42. 100% |   9.0 MiB/s |  18.4 KiB |  00m00s
[ 46/156] boost-program-options-0:1.83. 100% |  46.1 MiB/s |  94.4 KiB |  00m00s
[ 47/156] boost-python3-0:1.83.0-9.fc42 100% |  27.2 MiB/s |  83.5 KiB |  00m00s
[ 48/156] boost-random-0:1.83.0-9.fc42. 100% |  20.6 MiB/s |  21.1 KiB |  00m00s
[ 49/156] boost-regex-0:1.83.0-9.fc42.a 100% |  48.5 MiB/s |  99.3 KiB |  00m00s
[ 50/156] boost-serialization-0:1.83.0- 100% |  36.6 MiB/s | 112.4 KiB |  00m00s
[ 51/156] boost-stacktrace-0:1.83.0-9.f 100% |  12.2 MiB/s |  24.9 KiB |  00m00s
[ 52/156] boost-system-0:1.83.0-9.fc42. 100% |  13.3 MiB/s |  13.6 KiB |  00m00s
[ 53/156] boost-test-0:1.83.0-9.fc42.aa 100% |  67.4 MiB/s | 207.0 KiB |  00m00s
[ 54/156] boost-thread-0:1.83.0-9.fc42. 100% |  26.3 MiB/s |  53.9 KiB |  00m00s
[ 55/156] boost-timer-0:1.83.0-9.fc42.a 100% |  19.1 MiB/s |  19.6 KiB |  00m00s
[ 56/156] boost-type_erasure-0:1.83.0-9 100% |  27.9 MiB/s |  28.5 KiB |  00m00s
[ 57/156] boost-wave-0:1.83.0-9.fc42.aa 100% |  60.9 MiB/s | 187.1 KiB |  00m00s
[ 58/156] libgfortran-0:14.2.1-6.fc42.a 100% | 112.4 MiB/s | 460.6 KiB |  00m00s
[ 59/156] flexiblas-openblas-openmp-0:3 100% |   7.7 MiB/s |  15.8 KiB |  00m00s
[ 60/156] flexiblas-openblas-openmp64-0 100% |  15.5 MiB/s |  15.9 KiB |  00m00s
[ 61/156] perl-DynaLoader-0:1.56-512.fc 100% |   6.3 MiB/s |  26.0 KiB |  00m00s
[ 62/156] python3-numpy-1:1.26.4-8.fc41 100% | 284.7 MiB/s |   6.8 MiB |  00m00s
[ 63/156] perl-Encode-4:3.21-511.fc41.a 100% | 104.1 MiB/s |   1.0 MiB |  00m00s
[ 64/156] perl-PathTools-0:3.91-511.fc4 100% |  28.5 MiB/s |  87.5 KiB |  00m00s
[ 65/156] python3-0:3.13.1-2.fc42.aarch 100% |  13.1 MiB/s |  26.9 KiB |  00m00s
[ 66/156] openblas-openmp-0:0.3.28-2.fc 100% | 189.3 MiB/s |   4.0 MiB |  00m00s
[ 67/156] htslib-0:1.15.1-6.fc42.aarch6 100% |   3.2 MiB/s | 468.7 KiB |  00m00s
[ 68/156] libicu-0:76.1-1.fc42.aarch64  100% | 233.8 MiB/s |  10.5 MiB |  00m00s
[ 69/156] perl-vars-0:1.05-512.fc42.noa 100% | 925.5 KiB/s |  13.0 KiB |  00m00s
[ 70/156] openblas-openmp64-0:0.3.28-2. 100% | 129.4 MiB/s |   3.9 MiB |  00m00s
[ 71/156] perl-Getopt-Long-1:2.58-2.fc4 100% |   6.9 MiB/s |  63.9 KiB |  00m00s
[ 72/156] perl-Getopt-Std-0:1.14-512.fc 100% |   1.9 MiB/s |  15.6 KiB |  00m00s
[ 73/156] perl-constant-0:1.33-512.fc41 100% |  22.5 MiB/s |  23.0 KiB |  00m00s
[ 74/156] perl-Storable-1:3.32-511.fc41 100% |  47.6 MiB/s |  97.4 KiB |  00m00s
[ 75/156] perl-MIME-Base64-0:3.16-511.f 100% |   9.8 MiB/s |  30.2 KiB |  00m00s
[ 76/156] perl-overload-0:1.37-512.fc42 100% |  44.4 MiB/s |  45.5 KiB |  00m00s
[ 77/156] perl-parent-1:0.243-1.fc42.no 100% |  14.9 MiB/s |  15.3 KiB |  00m00s
[ 78/156] perl-Scalar-List-Utils-5:1.68 100% |  35.8 MiB/s |  73.2 KiB |  00m00s
[ 79/156] perl-Errno-0:1.38-512.fc42.aa 100% |   4.8 MiB/s |  14.9 KiB |  00m00s
[ 80/156] openblas-0:0.3.28-2.fc42.aarc 100% |  40.0 MiB/s |  40.9 KiB |  00m00s
[ 81/156] perl-Pod-Usage-4:2.03-511.fc4 100% |  39.1 MiB/s |  40.0 KiB |  00m00s
[ 82/156] perl-Text-ParseWords-0:3.31-5 100% |  16.2 MiB/s |  16.6 KiB |  00m00s
[ 83/156] perl-base-0:2.27-512.fc42.noa 100% |  15.8 MiB/s |  16.2 KiB |  00m00s
[ 84/156] perl-Fcntl-0:1.18-512.fc42.aa 100% |  14.6 MiB/s |  30.0 KiB |  00m00s
[ 85/156] perl-IO-0:1.55-512.fc42.aarch 100% |  40.1 MiB/s |  82.0 KiB |  00m00s
[ 86/156] perl-overloading-0:0.02-512.f 100% |  12.6 MiB/s |  12.9 KiB |  00m00s
[ 87/156] perl-mro-0:1.29-512.fc42.aarc 100% |  14.4 MiB/s |  29.6 KiB |  00m00s
[ 88/156] libb2-0:0.98.1-12.fc41.aarch6 100% |  24.4 MiB/s |  24.9 KiB |  00m00s
[ 89/156] mpdecimal-0:2.5.1-16.fc41.aar 100% |  43.5 MiB/s |  89.1 KiB |  00m00s
[ 90/156] python-pip-wheel-0:24.3.1-1.f 100% | 240.8 MiB/s |   1.2 MiB |  00m00s
[ 91/156] tzdata-0:2024a-9.fc41.noarch  100% | 116.3 MiB/s | 714.7 KiB |  00m00s
[ 92/156] perl-Pod-Perldoc-0:3.28.01-51 100% |  28.0 MiB/s |  86.1 KiB |  00m00s
[ 93/156] perl-podlators-1:6.0.2-2.fc41 100% |  41.9 MiB/s | 128.8 KiB |  00m00s
[ 94/156] perl-File-stat-0:1.14-512.fc4 100% |   8.3 MiB/s |  17.0 KiB |  00m00s
[ 95/156] perl-SelectSaver-0:1.02-512.f 100% |  11.4 MiB/s |  11.7 KiB |  00m00s
[ 96/156] perl-Socket-4:2.038-511.fc41. 100% |  27.1 MiB/s |  55.5 KiB |  00m00s
[ 97/156] perl-Symbol-0:1.09-512.fc42.n 100% |   6.9 MiB/s |  14.2 KiB |  00m00s
[ 98/156] libicu-devel-0:76.1-1.fc42.aa 100% | 193.4 MiB/s | 792.3 KiB |  00m00s
[ 99/156] perl-File-Temp-1:0.231.100-51 100% |  14.4 MiB/s |  59.1 KiB |  00m00s
[100/156] perl-HTTP-Tiny-0:0.090-1.fc42 100% |  55.1 MiB/s |  56.5 KiB |  00m00s
[101/156] perl-IPC-Open3-0:1.22-512.fc4 100% |  21.3 MiB/s |  21.8 KiB |  00m00s
[102/156] perl-Pod-Simple-1:3.45-511.fc 100% | 106.9 MiB/s | 219.0 KiB |  00m00s
[103/156] perl-POSIX-0:2.20-512.fc42.aa 100% |  47.4 MiB/s |  97.0 KiB |  00m00s
[104/156] perl-Term-ANSIColor-0:5.01-51 100% |  23.3 MiB/s |  47.7 KiB |  00m00s
[105/156] perl-Term-Cap-0:1.18-511.fc41 100% |  10.8 MiB/s |  22.1 KiB |  00m00s
[106/156] perl-Class-Struct-0:0.68-512. 100% |  10.7 MiB/s |  22.0 KiB |  00m00s
[107/156] perl-File-Path-0:2.18-511.fc4 100% |  34.4 MiB/s |  35.3 KiB |  00m00s
[108/156] perl-IO-Socket-SSL-0:2.089-1. 100% | 112.9 MiB/s | 231.2 KiB |  00m00s
[109/156] perl-Net-SSLeay-0:1.94-7.fc41 100% | 122.2 MiB/s | 375.4 KiB |  00m00s
[110/156] perl-Time-Local-2:1.350-511.f 100% |  33.7 MiB/s |  34.5 KiB |  00m00s
[111/156] perl-Pod-Escapes-1:1.07-511.f 100% |   9.7 MiB/s |  19.8 KiB |  00m00s
[112/156] perl-Text-Tabs+Wrap-0:2024.00 100% |  10.7 MiB/s |  21.9 KiB |  00m00s
[113/156] perl-if-0:0.61.000-512.fc42.n 100% |   6.8 MiB/s |  14.0 KiB |  00m00s
[114/156] perl-locale-0:1.12-512.fc42.n 100% |  13.3 MiB/s |  13.6 KiB |  00m00s
[115/156] ncurses-0:6.5-2.20240629.fc41 100% | 137.6 MiB/s | 422.6 KiB |  00m00s
[116/156] perl-IO-Socket-IP-0:0.43-1.fc 100% |  13.7 MiB/s |  42.2 KiB |  00m00s
[117/156] perl-AutoLoader-0:5.74-512.fc 100% |  20.7 MiB/s |  21.2 KiB |  00m00s
[118/156] perl-URI-0:5.31-1.fc42.noarch 100% |  68.7 MiB/s | 140.6 KiB |  00m00s
[119/156] perl-Data-Dumper-0:2.189-512. 100% |  26.9 MiB/s |  55.1 KiB |  00m00s
[120/156] perl-MIME-Base32-0:1.303-21.f 100% |  10.0 MiB/s |  20.5 KiB |  00m00s
[121/156] perl-libnet-0:3.15-512.fc41.n 100% |  62.7 MiB/s | 128.5 KiB |  00m00s
[122/156] perl-B-0:1.89-512.fc42.aarch6 100% |  86.5 MiB/s | 177.1 KiB |  00m00s
[123/156] perl-Digest-MD5-0:2.59-5.fc41 100% |  35.2 MiB/s |  36.1 KiB |  00m00s
[124/156] perl-FileHandle-0:2.05-512.fc 100% |  15.1 MiB/s |  15.5 KiB |  00m00s
[125/156] perl-Digest-0:1.20-511.fc41.n 100% |  24.3 MiB/s |  24.9 KiB |  00m00s
[126/156] perl-Thread-Queue-0:3.14-511. 100% |  20.8 MiB/s |  21.3 KiB |  00m00s
[127/156] automake-0:1.17-1.fc42.noarch 100% | 135.7 MiB/s | 694.9 KiB |  00m00s
[128/156] perl-threads-1:2.40-511.fc41. 100% |  28.0 MiB/s |  57.4 KiB |  00m00s
[129/156] perl-threads-shared-0:1.69-51 100% |  43.3 MiB/s |  44.3 KiB |  00m00s
[130/156] emacs-filesystem-1:30.0-3.fc4 100% |   7.0 MiB/s |   7.1 KiB |  00m00s
[131/156] perl-File-Compare-0:1.100.800 100% |   6.4 MiB/s |  13.2 KiB |  00m00s
[132/156] autoconf-0:2.72-3.fc42.noarch 100% | 159.7 MiB/s | 817.8 KiB |  00m00s
[133/156] perl-File-Copy-0:2.41-512.fc4 100% |   9.8 MiB/s |  20.1 KiB |  00m00s
[134/156] perl-File-Find-0:1.44-512.fc4 100% |  12.3 MiB/s |  25.3 KiB |  00m00s
[135/156] m4-0:1.4.19-10.fc42.aarch64   100% |  94.7 MiB/s | 290.8 KiB |  00m00s
[136/156] SuperLU-devel-0:7.0.0-1.fc42. 100% |   9.1 MiB/s |  28.0 KiB |  00m00s
[137/156] arpack-devel-0:3.9.1-4.fc42.a 100% |  22.0 MiB/s |  22.5 KiB |  00m00s
[138/156] armadillo-0:12.8.1-5.fc42.aar 100% |   6.6 MiB/s |  27.1 KiB |  00m00s
[139/156] hdf5-devel-0:1.14.5-1.fc42.aa 100% | 174.1 MiB/s |   1.4 MiB |  00m00s
[140/156] python3-libs-0:3.13.1-2.fc42. 100% |  84.9 MiB/s |   8.8 MiB |  00m00s
[141/156] libaec-devel-0:1.1.3-1.fc42.a 100% |   1.1 MiB/s |  12.1 KiB |  00m00s
[142/156] arpack-0:3.9.1-4.fc42.aarch64 100% |  44.3 MiB/s | 181.3 KiB |  00m00s
[143/156] libaec-0:1.1.3-1.fc42.aarch64 100% |   3.3 MiB/s |  36.7 KiB |  00m00s
[144/156] SuperLU-0:7.0.0-1.fc42.aarch6 100% |  33.6 MiB/s | 172.2 KiB |  00m00s
[145/156] gcc-gfortran-0:14.2.1-6.fc42. 100% | 253.1 MiB/s |  12.1 MiB |  00m00s
[146/156] cmake-filesystem-0:3.31.2-1.f 100% |   1.0 MiB/s |  17.6 KiB |  00m00s
[147/156] metis-0:5.1.0.3-6.fc41.aarch6 100% |  27.8 MiB/s | 568.6 KiB |  00m00s
[148/156] expat-0:2.6.4-1.fc42.aarch64  100% |  52.1 MiB/s | 106.7 KiB |  00m00s
[149/156] glibc-devel-0:2.40.9000-21.fc 100% | 136.7 MiB/s | 560.0 KiB |  00m00s
[150/156] groff-base-0:1.23.0-7.fc42.aa 100% | 125.6 MiB/s |   1.0 MiB |  00m00s
[151/156] libxcrypt-devel-0:4.4.36-11.f 100% |  14.0 MiB/s |  28.7 KiB |  00m00s
[152/156] kernel-headers-0:6.13.0-0.rc1 100% | 146.6 MiB/s |   1.6 MiB |  00m00s
[153/156] gcc-plugin-annobin-0:14.2.1-6 100% |  18.7 MiB/s |  57.3 KiB |  00m00s
[154/156] annobin-plugin-gcc-0:12.79-1. 100% | 238.3 MiB/s | 975.9 KiB |  00m00s
[155/156] annobin-docs-0:12.79-1.fc42.n 100% |  22.6 MiB/s |  92.7 KiB |  00m00s
[156/156] hdf5-0:1.14.5-1.fc42.aarch64  100% | 139.0 MiB/s |   1.9 MiB |  00m00s
--------------------------------------------------------------------------------
[156/156] Total                         100% | 269.8 MiB/s | 154.9 MiB |  00m01s
Running transaction
[  1/158] Verify package files          100% | 280.0   B/s | 156.0   B |  00m01s
[  2/158] Prepare transaction           100% | 881.0   B/s | 156.0   B |  00m00s
[  3/158] Installing boost-system-0:1.8 100% |  66.7 MiB/s |  68.3 KiB |  00m00s
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[  5/158] Installing boost-chrono-0:1.8 100% |  67.1 MiB/s |  68.7 KiB |  00m00s
[  6/158] Installing boost-thread-0:1.8 100% | 129.7 MiB/s | 132.8 KiB |  00m00s
[  7/158] Installing libicu-0:76.1-1.fc 100% | 331.7 MiB/s |  36.5 MiB |  00m00s
[  8/158] Installing libmpc-0:1.3.1-6.f 100% | 137.8 MiB/s | 282.3 KiB |  00m00s
[  9/158] Installing boost-regex-0:1.83 100% | 127.3 MiB/s | 260.7 KiB |  00m00s
[ 10/158] Installing boost-context-0:1. 100% |  66.8 MiB/s |  68.4 KiB |  00m00s
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[ 13/158] Installing cmake-filesystem-0 100% |   3.7 MiB/s |   7.6 KiB |  00m00s
[ 14/158] Installing libaec-0:1.1.3-1.f 100% | 403.0 MiB/s | 412.6 KiB |  00m00s
[ 15/158] Installing openblas-0:0.3.28- 100% | 105.8 MiB/s | 108.3 KiB |  00m00s
[ 16/158] Installing boost-date-time-0: 100% |  66.7 MiB/s |  68.3 KiB |  00m00s
[ 17/158] Installing boost-container-0: 100% |  22.4 MiB/s |  68.7 KiB |  00m00s
[ 18/158] Installing libstdc++-devel-0: 100% | 258.1 MiB/s |  15.2 MiB |  00m00s
[ 19/158] Installing boost-json-0:1.83. 100% | 158.7 MiB/s | 325.0 KiB |  00m00s
[ 20/158] Installing boost-wave-0:1.83. 100% | 210.1 MiB/s | 645.4 KiB |  00m00s
[ 21/158] Installing openblas-openmp-0: 100% | 411.3 MiB/s |  20.6 MiB |  00m00s
[ 22/158] Installing flexiblas-netlib-0 100% | 317.5 MiB/s |   9.2 MiB |  00m00s
[ 23/158] Installing flexiblas-0:3.4.4- 100% |  48.5 MiB/s |  49.7 KiB |  00m00s
[ 24/158] Installing flexiblas-openblas 100% |  65.6 MiB/s |  67.2 KiB |  00m00s
[ 25/158] Installing openblas-openmp64- 100% | 417.3 MiB/s |  20.4 MiB |  00m00s
[ 26/158] Installing flexiblas-netlib64 100% | 315.4 MiB/s |   9.1 MiB |  00m00s
[ 27/158] Installing flexiblas-openblas 100% |  65.6 MiB/s |  67.2 KiB |  00m00s
[ 28/158] Installing arpack-0:3.9.1-4.f 100% | 179.7 MiB/s | 552.1 KiB |  00m00s
[ 29/158] Installing armadillo-0:12.8.1 100% | 140.4 MiB/s | 143.8 KiB |  00m00s
[ 30/158] Installing arpack-devel-0:3.9 100% |  70.4 MiB/s |  72.1 KiB |  00m00s
[ 31/158] Installing flexiblas-devel-0: 100% | 540.1 MiB/s |   4.9 MiB |  00m00s
[ 32/158] Installing libaec-devel-0:1.1 100% |  13.2 MiB/s |  13.5 KiB |  00m00s
[ 33/158] Installing hdf5-0:1.14.5-1.fc 100% | 310.1 MiB/s |   8.1 MiB |  00m00s
[ 34/158] Installing zlib-ng-compat-dev 100% | 105.8 MiB/s | 108.3 KiB |  00m00s
[ 35/158] Installing boost-fiber-0:1.83 100% | 129.7 MiB/s | 132.8 KiB |  00m00s
[ 36/158] Installing boost-log-0:1.83.0 100% | 276.7 MiB/s |   1.4 MiB |  00m00s
[ 37/158] Installing boost-coroutine-0: 100% |  67.1 MiB/s |  68.7 KiB |  00m00s
[ 38/158] Installing boost-graph-0:1.83 100% | 158.8 MiB/s | 325.2 KiB |  00m00s
[ 39/158] Installing cpp-0:14.2.1-6.fc4 100% | 312.4 MiB/s |  33.7 MiB |  00m00s
[ 40/158] Installing boost-locale-0:1.8 100% | 189.3 MiB/s | 581.4 KiB |  00m00s
[ 41/158] Installing libicu-devel-0:76. 100% | 244.1 MiB/s |   5.1 MiB |  00m00s
[ 42/158] Installing boost-type_erasure 100% |  67.1 MiB/s |  68.7 KiB |  00m00s
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[ 44/158] Installing annobin-docs-0:12. 100% |  32.5 MiB/s |  99.7 KiB |  00m00s
[ 45/158] Installing kernel-headers-0:6 100% | 128.1 MiB/s |   6.5 MiB |  00m00s
[ 46/158] Installing libxcrypt-devel-0: 100% |  16.0 MiB/s |  32.9 KiB |  00m00s
[ 47/158] Installing glibc-devel-0:2.40 100% |  76.3 MiB/s |   2.3 MiB |  00m00s
[ 48/158] Installing groff-base-0:1.23. 100% | 148.3 MiB/s |   4.2 MiB |  00m00s
[ 49/158] Installing expat-0:2.6.4-1.fc 100% | 112.5 MiB/s | 345.6 KiB |  00m00s
[ 50/158] Installing metis-0:5.1.0.3-6. 100% | 341.4 MiB/s |   2.0 MiB |  00m00s
[ 51/158] Installing SuperLU-0:7.0.0-1. 100% | 221.9 MiB/s | 454.4 KiB |  00m00s
[ 52/158] Installing SuperLU-devel-0:7. 100% | 103.9 MiB/s | 106.4 KiB |  00m00s
[ 53/158] Installing m4-0:1.4.19-10.fc4 100% | 118.3 MiB/s | 605.9 KiB |  00m00s
[ 54/158] Installing emacs-filesystem-1 100% |   0.0   B/s | 544.0   B |  00m00s
[ 55/158] Installing ncurses-0:6.5-2.20 100% | 337.8 MiB/s |   1.7 MiB |  00m00s
[ 56/158] Installing perl-Digest-0:1.20 100% |  36.2 MiB/s |  37.1 KiB |  00m00s
[ 57/158] Installing perl-B-0:1.89-512. 100% | 198.4 MiB/s | 609.4 KiB |  00m00s
[ 58/158] Installing perl-FileHandle-0: 100% |   0.0   B/s |   9.8 KiB |  00m00s
[ 59/158] Installing perl-Digest-MD5-0: 100% | 228.3 MiB/s | 233.8 KiB |  00m00s
[ 60/158] Installing perl-MIME-Base32-0 100% |  31.4 MiB/s |  32.2 KiB |  00m00s
[ 61/158] Installing perl-Data-Dumper-0 100% | 129.7 MiB/s | 265.7 KiB |  00m00s
[ 62/158] Installing perl-libnet-0:3.15 100% | 143.9 MiB/s | 294.7 KiB |  00m00s
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[ 66/158] Installing perl-File-Path-0:2 100% |  63.0 MiB/s |  64.5 KiB |  00m00s
[ 67/158] Installing perl-Time-Local-2: 100% |  68.9 MiB/s |  70.6 KiB |  00m00s
[ 68/158] Installing perl-Pod-Escapes-1 100% |  25.3 MiB/s |  25.9 KiB |  00m00s
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[ 70/158] Installing perl-if-0:0.61.000 100% |   0.0   B/s |   6.2 KiB |  00m00s
[ 71/158] Installing perl-locale-0:1.12 100% |   6.7 MiB/s |   6.9 KiB |  00m00s
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[ 73/158] Installing perl-IO-Socket-SSL 100% | 230.3 MiB/s | 707.4 KiB |  00m00s
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[ 76/158] Installing perl-Class-Struct- 100% |   0.0   B/s |  25.9 KiB |  00m00s
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[ 78/158] Installing perl-IPC-Open3-0:1 100% |  22.7 MiB/s |  23.3 KiB |  00m00s
[ 79/158] Installing perl-POSIX-0:2.20- 100% | 160.4 MiB/s | 328.5 KiB |  00m00s
[ 80/158] Installing perl-Pod-Simple-1: 100% | 139.3 MiB/s | 570.5 KiB |  00m00s
[ 81/158] Installing perl-HTTP-Tiny-0:0 100% | 152.8 MiB/s | 156.4 KiB |  00m00s
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Warning: skipped OpenPGP checks for 25 packages from repository: copr_base
Complete!
Finish: build setup for mmseq-1.0.11-20.fc42.src.rpm
Start: rpmbuild mmseq-1.0.11-20.fc42.src.rpm
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1721260800
Executing(%mkbuilddir): /bin/sh -e /var/tmp/rpm-tmp.8vEqQy
+ 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.nAPdKD
+ 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.JVIXys
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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++/14/algorithm:61,
                 from t2g_hits.cpp:27:
/usr/include/c++/14/bits/stl_algo.h:891:5: note: declared here
  891 |     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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 fasta.o extract_transcripts.cpp -o ../bin/extract_transcripts
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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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
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;
      |       ^~~~
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++) {
      |                ~~^~~~~~~~~~~~~
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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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
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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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
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++) {
      |                    ~~^~~~~~~~~~~~~~~~~~~~~~~
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++/14/algorithm:61,
                 from mmdiff.cpp:31:
/usr/include/c++/14/bits/stl_algo.h:4491:5: note: declared here
 4491 |     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++) {
      |                          ~~~~~~~~^~~~~~~~~~~~~~~~~
/usr/bin/ld: /tmp/ccaoP4sx.ltrans0.ltrans.o: in function `main':
/builddir/build/BUILD/mmseq-1.0.11-build/mmseq-1.0.11/src/bam2hits.cpp:653:(.text.startup+0x2928): 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.Za4Xau
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-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 1.0.11-20.fc42 --unique-debug-suffix -1.0.11-20.fc42.aarch64 --unique-debug-src-base mmseq-1.0.11-20.fc42.aarch64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -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-1.0.11-20.fc42.aarch64
find-debuginfo: done
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/check-rpaths
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
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.xhXV8O
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-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-1.0.11-20.fc42.aarch64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.SnZDLP
+ 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 = 1.0.11-20.fc42 mmseq(aarch-64) = 1.0.11-20.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 ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libboost_iostreams.so.1.83.0()(64bit) libboost_regex.so.1.83.0()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(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) 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_2.17)(64bit) libm.so.6(GLIBC_2.29)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.15)(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-1.0.11-20.fc42.aarch64
Provides: mmseq-debugsource = 1.0.11-20.fc42 mmseq-debugsource(aarch-64) = 1.0.11-20.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: mmseq-debuginfo-1.0.11-20.fc42.aarch64
Provides: debuginfo(build-id) = 2022fe2dd015b6fa4a63ab5d5dcf1125a8f6ee24 debuginfo(build-id) = 4a8c5020b2c6f68efeca2ebd1d68e014605892f4 debuginfo(build-id) = 543dd381d732fc896fe79a601442c060f6eac51f debuginfo(build-id) = aeaeb72a1dff1e379b4cdc5a71cdaa829cf574c5 debuginfo(build-id) = bdec2e9148a1c416ddb5eada51fd2fd8b877e170 debuginfo(build-id) = c928c4241626f7eb655289e989cca94fda3bb2d6 debuginfo(build-id) = cb036ca3da9624ed825027554cc935875315a3e1 debuginfo(build-id) = df45d2b7e91a8d07409fcc5143637e559c5d4c16 mmseq-debuginfo = 1.0.11-20.fc42 mmseq-debuginfo(aarch-64) = 1.0.11-20.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: mmseq-debugsource(aarch-64) = 1.0.11-20.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-1.0.11-20.fc42.aarch64.rpm
Wrote: /builddir/build/RPMS/mmseq-1.0.11-20.fc42.aarch64.rpm
Wrote: /builddir/build/RPMS/mmseq-debuginfo-1.0.11-20.fc42.aarch64.rpm
Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.NKv9CY
+ 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-1.0.11-20.fc42.src.rpm
Finish: build phase for mmseq-1.0.11-20.fc42.src.rpm
INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-rawhide-aarch64-1733998694.910381/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-1.0.11-20.fc42.src.rpm) Config(child) 0 minutes 58 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",
            "epoch": null,
            "version": "1.0.11",
            "release": "20.fc42",
            "arch": "src"
        },
        {
            "name": "mmseq-debuginfo",
            "epoch": null,
            "version": "1.0.11",
            "release": "20.fc42",
            "arch": "aarch64"
        },
        {
            "name": "mmseq-debugsource",
            "epoch": null,
            "version": "1.0.11",
            "release": "20.fc42",
            "arch": "aarch64"
        },
        {
            "name": "mmseq",
            "epoch": null,
            "version": "1.0.11",
            "release": "20.fc42",
            "arch": "aarch64"
        }
    ]
}
RPMResults finished