Warning: Permanently added '2620:52:3:1:dead:beef:cafe:c151' (ED25519) to the list of known hosts. Running: /usr/bin/copr-rpmbuild --verbose --drop-resultdir --build-id 5188571 --chroot epel-8-x86_64 --detached Version: 0.62 PID: 10194 Logging PID: 10195 Task: {'appstream': True, 'background': False, 'bootstrap': 'off', 'build_id': 5188571, 'buildroot_pkgs': [], 'chroot': 'epel-8-x86_64', 'enable_net': False, 'fedora_review': False, 'git_hash': '2dc51c3bb0facc8ec7e9238740d0d0632b86f9f2', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/aminasyan/el8-collection/BEDTools', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'BEDTools', 'package_version': '2.30.0-3.el8', 'project_dirname': 'el8-collection', 'project_name': 'el8-collection', 'project_owner': 'aminasyan', 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/aminasyan/el8-collection/epel-8-x86_64/', 'id': 'copr_base', 'name': 'Copr repository'}, {'baseurl': 'https://copr-be.cloud.fedoraproject.org/results/aminasyan/el8-collection/epel-8-x86_64/', 'id': 'https_copr_be_cloud_fedoraproject_org_results_aminasyan_el8_collection_chroot', 'name': 'Additional repo https_copr_be_cloud_fedoraproject_org_results_aminasyan_el8_collection_chroot'}], 'sandbox': 'aminasyan/el8-collection--aminasyan', 'source_json': {}, 'source_type': None, 'submitter': 'aminasyan', 'tags': [], 'task_id': '5188571-epel-8-x86_64', 'timeout': 18000, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/aminasyan/el8-collection/BEDTools /var/lib/copr-rpmbuild/workspace/workdir-9to3rn7y/BEDTools --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/aminasyan/el8-collection/BEDTools', '/var/lib/copr-rpmbuild/workspace/workdir-9to3rn7y/BEDTools', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-9to3rn7y/BEDTools'... Running: git checkout 2dc51c3bb0facc8ec7e9238740d0d0632b86f9f2 cmd: ['git', 'checkout', '2dc51c3bb0facc8ec7e9238740d0d0632b86f9f2'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-9to3rn7y/BEDTools rc: 0 stdout: stderr: Note: switching to '2dc51c3bb0facc8ec7e9238740d0d0632b86f9f2'. You are in 'detached HEAD' state. You can look around, make experimental changes and commit them, and you can discard any commits you make in this state without impacting any branches by switching back to a branch. If you want to create a new branch to retain commits you create, you may do so (now or later) by using -c with the switch command. Example: git switch -c Or undo this operation with: git switch - Turn off this advice by setting config variable advice.detachedHead to false HEAD is now at 2dc51c3 automatic import of BEDTools Running: copr-distgit-client sources cmd: ['copr-distgit-client', 'sources'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-9to3rn7y/BEDTools rc: 0 stdout: stderr: INFO: Reading stdout from command: git rev-parse --abbrev-ref HEAD INFO: Reading stdout from command: git rev-parse HEAD INFO: Reading sources specification file: sources INFO: Downloading bedtools2-2.30.0.tar.gz /usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated INFO: Calling: curl -H Pragma: -o bedtools2-2.30.0.tar.gz --location --remote-time --show-error --fail https://copr-dist-git.fedorainfracloud.org/repo/pkgs/aminasyan/el8-collection/BEDTools/bedtools2-2.30.0.tar.gz/md5/66aaae3561bf20d9ce9a249944c57eb0/bedtools2-2.30.0.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 19.6M 100 19.6M 0 0 33.4M 0 --:--:-- --:--:-- --:--:-- 33.4M INFO: Reading stdout from command: md5sum bedtools2-2.30.0.tar.gz Running (timeout=18000): unbuffer mock --buildsrpm --spec /var/lib/copr-rpmbuild/workspace/workdir-9to3rn7y/BEDTools/BEDTools.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-9to3rn7y/BEDTools --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1672348713.251555 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 3.5 starting (python version = 3.11.0, NVR = mock-3.5-1.fc37)... Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/var/lib/copr-rpmbuild/workspace/workdir-9to3rn7y/BEDTools/BEDTools.spec) Config(rhel+epel-8-x86_64) Start: clean chroot Finish: clean chroot Start: chroot init INFO: mounting tmpfs at /var/lib/mock/rhel+epel-8-x86_64-1672348713.251555/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin Mock Version: 3.5 INFO: Mock Version: 3.5 Start: dnf install No matches found for the following disable plugin patterns: local, spacewalk, versionlock Updating Subscription Management repositories. Unable to read consumer identity This system is not registered with an entitlement server. You can use subscription-manager to register. Copr repository 46 kB/s | 3.7 kB 00:00 Copr repository 3.7 MB/s | 923 kB 00:00 Additional repo https_copr_be_cloud_fedoraproje 57 kB/s | 3.7 kB 00:00 Additional repo https_copr_be_cloud_fedoraproje 4.6 MB/s | 923 kB 00:00 Red Hat Enterprise Linux - BaseOS 14 kB/s | 4.1 kB 00:00 Red Hat Enterprise Linux - AppStream 18 kB/s | 4.5 kB 00:00 Red Hat Enterprise Linux - CodeReady Linux Buil 20 kB/s | 4.5 kB 00:00 Extra Packages for Enterprise Linux 8 - x86_64 641 kB/s | 28 kB 00:00 Dependencies resolved. =========================================================================================== Package Arch Version Repository Size =========================================================================================== Installing: bash x86_64 4.4.20-4.el8_6 rhel-baseos 1.5 M bzip2 x86_64 1.0.6-26.el8 rhel-baseos 60 k coreutils x86_64 8.30-13.el8 rhel-baseos 1.2 M cpio x86_64 2.13-8.el8 copr_base 288 k diffutils x86_64 3.6-6.el8 rhel-baseos 359 k epel-rpm-macros noarch 8-35 epel 24 k findutils x86_64 1:4.6.0-20.el8 rhel-baseos 528 k gawk x86_64 4.2.1-4.el8 rhel-baseos 1.1 M gcc x86_64 8.5.0-15.el8 rhel-appstream 23 M gcc-c++ x86_64 8.5.0-15.el8 rhel-appstream 12 M grep x86_64 3.1-6.el8 rhel-baseos 274 k gzip x86_64 1.9-13.el8_5 rhel-baseos 167 k info x86_64 6.5-7.el8 rhel-baseos 198 k make x86_64 1:4.2.1-11.el8 rhel-baseos 498 k patch x86_64 2.7.6-11.el8 rhel-baseos 138 k redhat-release x86_64 8.7-0.3.el8 rhel-baseos 44 k redhat-rpm-config noarch 130-1.el8 rhel-appstream 90 k rpm-build x86_64 4.14.3-24.el8_7 rhel-appstream 174 k sed x86_64 4.5-5.el8 rhel-baseos 298 k shadow-utils x86_64 2:4.6-17.el8 rhel-baseos 1.2 M tar x86_64 2:1.30-6.el8 rhel-baseos 838 k unzip x86_64 6.0-46.el8 rhel-baseos 196 k util-linux x86_64 2.32.1-38.el8 rhel-baseos 2.5 M which x86_64 2.21-18.el8 rhel-baseos 50 k xz x86_64 5.2.4-4.el8_6 rhel-baseos 153 k Installing dependencies: annobin x86_64 10.67-3.el8 rhel-appstream 955 k ansible-srpm-macros noarch 1-8.1.el8 epel 8.5 k audit-libs x86_64 3.0.7-4.el8 rhel-baseos 123 k basesystem noarch 11-5.el8 rhel-baseos 11 k binutils x86_64 2.30-117.el8 rhel-baseos 5.8 M brotli x86_64 1.0.6-3.el8 rhel-baseos 323 k bzip2-libs x86_64 1.0.6-26.el8 rhel-baseos 48 k ca-certificates noarch 2022.2.54-80.2.el8_6 rhel-baseos 921 k chkconfig x86_64 1.19.1-1.el8 rhel-baseos 198 k coreutils-common x86_64 8.30-13.el8 rhel-baseos 2.0 M cpp x86_64 8.5.0-15.el8 rhel-appstream 10 M cracklib x86_64 2.9.6-15.el8 rhel-baseos 93 k cracklib-dicts x86_64 2.9.6-15.el8 rhel-baseos 4.0 M crypto-policies noarch 20211116-1.gitae470d6.el8 rhel-baseos 64 k curl x86_64 7.61.1-25.el8 rhel-baseos 352 k cyrus-sasl-lib x86_64 2.1.27-6.el8_5 rhel-baseos 123 k dwz x86_64 0.12-10.el8 rhel-appstream 109 k efi-srpm-macros noarch 3-3.el8 rhel-appstream 22 k elfutils x86_64 0.187-4.el8 rhel-baseos 543 k elfutils-default-yama-scope noarch 0.187-4.el8 rhel-baseos 52 k elfutils-libelf x86_64 0.187-4.el8 rhel-baseos 231 k elfutils-libs x86_64 0.187-4.el8 rhel-baseos 297 k expat x86_64 2.2.5-10.el8 rhel-baseos 113 k file x86_64 5.33-21.el8 rhel-baseos 77 k file-libs x86_64 5.33-21.el8 rhel-baseos 543 k filesystem x86_64 3.8-6.el8 rhel-baseos 1.1 M fpc-srpm-macros noarch 1.3-1.el8 epel 8.2 k gc x86_64 7.6.4-3.el8 rhel-appstream 109 k gcc-plugin-annobin x86_64 8.5.0-15.el8 rhel-appstream 35 k gdb-headless x86_64 8.2-19.el8 rhel-appstream 3.7 M gdbm x86_64 1:1.18-2.el8 rhel-baseos 130 k gdbm-libs x86_64 1:1.18-2.el8 rhel-baseos 60 k ghc-srpm-macros noarch 1.4.2-7.el8 rhel-appstream 9.4 k glib2 x86_64 2.56.4-159.el8 rhel-baseos 2.5 M glibc x86_64 2.28-211.el8 rhel-baseos 2.2 M glibc-all-langpacks x86_64 2.28-211.el8 rhel-baseos 26 M glibc-common x86_64 2.28-211.el8 rhel-baseos 1.0 M glibc-devel x86_64 2.28-211.el8 rhel-baseos 82 k glibc-gconv-extra x86_64 2.28-211.el8 rhel-baseos 1.5 M glibc-headers x86_64 2.28-211.el8 rhel-baseos 486 k gmp x86_64 1:6.1.2-10.el8 rhel-baseos 321 k gnupg2 x86_64 2.2.20-3.el8_6 rhel-baseos 2.4 M gnutls x86_64 3.6.16-5.el8_6 rhel-baseos 1.0 M go-srpm-macros noarch 2-17.el8 rhel-appstream 13 k guile x86_64 5:2.0.14-7.el8 rhel-appstream 3.5 M ima-evm-utils x86_64 1.3.2-12.el8 rhel-baseos 64 k isl x86_64 0.16.1-6.el8 rhel-appstream 841 k kernel-headers x86_64 4.18.0-425.3.1.el8 rhel-baseos 10 M keyutils-libs x86_64 1.5.10-9.el8 rhel-baseos 34 k krb5-libs x86_64 1.18.2-22.el8_7 rhel-baseos 840 k libacl x86_64 2.2.53-1.el8 rhel-baseos 35 k libarchive x86_64 3.3.3-4.el8 rhel-baseos 360 k libassuan x86_64 2.5.1-3.el8 rhel-baseos 83 k libatomic_ops x86_64 7.6.2-3.el8 rhel-appstream 38 k libattr x86_64 2.4.48-3.el8 rhel-baseos 27 k libbabeltrace x86_64 1.5.4-4.el8 rhel-baseos 200 k libblkid x86_64 2.32.1-38.el8 rhel-baseos 219 k libcap x86_64 2.48-4.el8 rhel-baseos 74 k libcap-ng x86_64 0.7.11-1.el8 rhel-baseos 33 k libcom_err x86_64 1.45.6-5.el8 rhel-baseos 49 k libcurl x86_64 7.61.1-25.el8 rhel-baseos 302 k libdb x86_64 5.3.28-42.el8_4 rhel-baseos 751 k libdb-utils x86_64 5.3.28-42.el8_4 rhel-baseos 150 k libfdisk x86_64 2.32.1-38.el8 rhel-baseos 253 k libffi x86_64 3.1-23.el8 rhel-baseos 37 k libgcc x86_64 8.5.0-15.el8 rhel-baseos 81 k libgcrypt x86_64 1.8.5-7.el8_6 rhel-baseos 463 k libgomp x86_64 8.5.0-15.el8 rhel-baseos 207 k libgpg-error x86_64 1.31-1.el8 rhel-baseos 242 k libidn2 x86_64 2.2.0-1.el8 rhel-baseos 94 k libipt x86_64 1.6.1-8.el8 rhel-appstream 50 k libksba x86_64 1.3.5-8.el8_6 rhel-baseos 134 k libmount x86_64 2.32.1-38.el8 rhel-baseos 236 k libmpc x86_64 1.1.0-9.1.el8 rhel-appstream 61 k libnghttp2 x86_64 1.33.0-3.el8_2.1 rhel-baseos 77 k libnsl2 x86_64 1.2.0-2.20180605git4a062cf.el8 rhel-baseos 58 k libpkgconf x86_64 1.4.2-1.el8 rhel-baseos 35 k libpsl x86_64 0.20.2-6.el8 rhel-baseos 61 k libpwquality x86_64 1.4.4-5.el8 rhel-baseos 107 k libselinux x86_64 2.9-6.el8 rhel-baseos 165 k libsemanage x86_64 2.9-9.el8_6 rhel-baseos 168 k libsepol x86_64 2.9-3.el8 rhel-baseos 340 k libsigsegv x86_64 2.11-5.el8 rhel-baseos 30 k libsmartcols x86_64 2.32.1-38.el8 rhel-baseos 179 k libssh x86_64 0.9.6-3.el8 rhel-baseos 216 k libssh-config noarch 0.9.6-3.el8 rhel-baseos 19 k libstdc++ x86_64 8.5.0-15.el8 rhel-baseos 454 k libstdc++-devel x86_64 8.5.0-15.el8 rhel-appstream 2.1 M libtasn1 x86_64 4.13-3.el8 rhel-baseos 76 k libtirpc x86_64 1.1.4-8.el8 rhel-baseos 113 k libtool-ltdl x86_64 2.4.6-25.el8 rhel-baseos 58 k libunistring x86_64 0.9.9-3.el8 rhel-baseos 422 k libusbx x86_64 1.0.23-4.el8 rhel-baseos 74 k libutempter x86_64 1.1.6-14.el8 rhel-baseos 32 k libuuid x86_64 2.32.1-38.el8 rhel-baseos 97 k libverto x86_64 0.3.2-2.el8 rhel-baseos 24 k libxcrypt x86_64 4.1.1-6.el8 rhel-baseos 73 k libxcrypt-devel x86_64 4.1.1-6.el8 rhel-baseos 25 k libxml2 x86_64 2.9.7-15.el8 rhel-baseos 696 k libzstd x86_64 1.4.4-1.el8 rhel-baseos 266 k lua-libs x86_64 5.3.4-12.el8 rhel-baseos 118 k lua-srpm-macros noarch 1-3.el8 epel 8.1 k lz4-libs x86_64 1.8.3-3.el8_4 rhel-baseos 66 k mpfr x86_64 3.1.6-1.el8 rhel-baseos 221 k ncurses x86_64 6.1-9.20180224.el8 rhel-baseos 387 k ncurses-base noarch 6.1-9.20180224.el8 rhel-baseos 81 k ncurses-libs x86_64 6.1-9.20180224.el8 rhel-baseos 334 k nettle x86_64 3.4.1-7.el8 rhel-baseos 301 k npth x86_64 1.5-4.el8 rhel-baseos 26 k ocaml-srpm-macros noarch 5-4.el8 rhel-appstream 9.5 k openblas-srpm-macros noarch 2-2.el8 rhel-appstream 8.0 k openldap x86_64 2.4.46-18.el8 rhel-baseos 352 k openssl-libs x86_64 1:1.1.1k-7.el8_6 rhel-baseos 1.5 M p11-kit x86_64 0.23.22-1.el8 rhel-baseos 324 k p11-kit-trust x86_64 0.23.22-1.el8 rhel-baseos 137 k pam x86_64 1.3.1-22.el8 rhel-baseos 743 k pcre x86_64 8.42-6.el8 rhel-baseos 211 k pcre2 x86_64 10.32-3.el8_6 rhel-baseos 247 k perl-srpm-macros noarch 1-25.el8 rhel-appstream 11 k pkgconf x86_64 1.4.2-1.el8 rhel-baseos 38 k pkgconf-m4 noarch 1.4.2-1.el8 rhel-baseos 17 k pkgconf-pkg-config x86_64 1.4.2-1.el8 rhel-baseos 15 k platform-python x86_64 3.6.8-48.el8_7 rhel-baseos 86 k platform-python-setuptools noarch 39.2.0-6.el8 rhel-baseos 632 k popt x86_64 1.18-1.el8 rhel-baseos 61 k publicsuffix-list-dafsa noarch 20180723-1.el8 rhel-baseos 56 k python-rpm-macros noarch 3-43.el8 rhel-appstream 16 k python-srpm-macros noarch 3-43.el8 rhel-appstream 15 k python3-libs x86_64 3.6.8-48.el8_7 rhel-baseos 7.8 M python3-pip-wheel noarch 9.0.3-22.el8 rhel-baseos 895 k python3-rpm-macros noarch 3-43.el8 rhel-appstream 15 k python3-setuptools-wheel noarch 39.2.0-6.el8 rhel-baseos 289 k qt5-srpm-macros noarch 5.15.3-1.el8 rhel-appstream 11 k readline x86_64 7.0-10.el8 rhel-baseos 199 k rpm x86_64 4.14.3-24.el8_7 rhel-baseos 543 k rpm-build-libs x86_64 4.14.3-24.el8_7 rhel-baseos 157 k rpm-libs x86_64 4.14.3-24.el8_7 rhel-baseos 346 k rust-srpm-macros noarch 5-2.el8 rhel-appstream 9.3 k setup noarch 2.12.2-7.el8 rhel-baseos 181 k sqlite-libs x86_64 3.26.0-16.el8_6 rhel-baseos 581 k systemd-libs x86_64 239-68.el8 rhel-baseos 1.1 M tpm2-tss x86_64 2.3.2-4.el8 rhel-baseos 275 k tzdata noarch 2022g-1.el8 rhel-baseos 470 k xz-libs x86_64 5.2.4-4.el8_6 rhel-baseos 94 k zip x86_64 3.0-23.el8 rhel-baseos 270 k zlib x86_64 1.2.11-20.el8 rhel-baseos 103 k zstd x86_64 1.4.4-1.el8 rhel-appstream 393 k Transaction Summary =========================================================================================== Install 172 Packages Total size: 162 M Installed size: 813 M Downloading Packages: [SKIPPED] cpio-2.13-8.el8.x86_64.rpm: Already downloaded [SKIPPED] libassuan-2.5.1-3.el8.x86_64.rpm: Already downloaded [SKIPPED] cracklib-2.9.6-15.el8.x86_64.rpm: Already downloaded [SKIPPED] libutempter-1.1.6-14.el8.x86_64.rpm: Already downloaded [SKIPPED] grep-3.1-6.el8.x86_64.rpm: Already downloaded [SKIPPED] readline-7.0-10.el8.x86_64.rpm: Already downloaded [SKIPPED] pkgconf-1.4.2-1.el8.x86_64.rpm: Already downloaded [SKIPPED] libsigsegv-2.11-5.el8.x86_64.rpm: Already downloaded [SKIPPED] npth-1.5-4.el8.x86_64.rpm: Already downloaded [SKIPPED] cracklib-dicts-2.9.6-15.el8.x86_64.rpm: Already downloaded [SKIPPED] libtasn1-4.13-3.el8.x86_64.rpm: Already downloaded [SKIPPED] libattr-2.4.48-3.el8.x86_64.rpm: Already downloaded [SKIPPED] pkgconf-pkg-config-1.4.2-1.el8.x86_64.rpm: Already downloaded [SKIPPED] bzip2-libs-1.0.6-26.el8.x86_64.rpm: Already downloaded [SKIPPED] mpfr-3.1.6-1.el8.x86_64.rpm: Already downloaded [SKIPPED] zip-3.0-23.el8.x86_64.rpm: Already downloaded [SKIPPED] libunistring-0.9.9-3.el8.x86_64.rpm: Already downloaded [SKIPPED] bzip2-1.0.6-26.el8.x86_64.rpm: Already downloaded [SKIPPED] libnsl2-1.2.0-2.20180605git4a062cf.el8.x86_64.rpm: Already downloaded [SKIPPED] libpkgconf-1.4.2-1.el8.x86_64.rpm: Already downloaded [SKIPPED] publicsuffix-list-dafsa-20180723-1.el8.noarch.rpm: Already downloaded [SKIPPED] pkgconf-m4-1.4.2-1.el8.noarch.rpm: Already downloaded [SKIPPED] findutils-4.6.0-20.el8.x86_64.rpm: Already downloaded [SKIPPED] libacl-2.2.53-1.el8.x86_64.rpm: Already downloaded [SKIPPED] basesystem-11-5.el8.noarch.rpm: Already downloaded [SKIPPED] libtool-ltdl-2.4.6-25.el8.x86_64.rpm: Already downloaded [SKIPPED] libgpg-error-1.31-1.el8.x86_64.rpm: Already downloaded [SKIPPED] gmp-6.1.2-10.el8.x86_64.rpm: Already downloaded [SKIPPED] diffutils-3.6-6.el8.x86_64.rpm: Already downloaded [SKIPPED] libidn2-2.2.0-1.el8.x86_64.rpm: Already downloaded [SKIPPED] patch-2.7.6-11.el8.x86_64.rpm: Already downloaded [SKIPPED] libnghttp2-1.33.0-3.el8_2.1.x86_64.rpm: Already downloaded [SKIPPED] libzstd-1.4.4-1.el8.x86_64.rpm: Already downloaded [SKIPPED] python3-setuptools-wheel-39.2.0-6.el8.noarch.rpm: Already downloaded [SKIPPED] libusbx-1.0.23-4.el8.x86_64.rpm: Already downloaded [SKIPPED] platform-python-setuptools-39.2.0-6.el8.noarch.rpm: Already downloaded [SKIPPED] p11-kit-trust-0.23.22-1.el8.x86_64.rpm: Already downloaded [SKIPPED] libpsl-0.20.2-6.el8.x86_64.rpm: Already downloaded [SKIPPED] popt-1.18-1.el8.x86_64.rpm: Already downloaded [SKIPPED] brotli-1.0.6-3.el8.x86_64.rpm: Already downloaded [SKIPPED] lz4-libs-1.8.3-3.el8_4.x86_64.rpm: Already downloaded [SKIPPED] ima-evm-utils-1.3.2-12.el8.x86_64.rpm: Already downloaded [SKIPPED] p11-kit-0.23.22-1.el8.x86_64.rpm: Already downloaded [SKIPPED] libxcrypt-devel-4.1.1-6.el8.x86_64.rpm: Already downloaded [SKIPPED] tpm2-tss-2.3.2-4.el8.x86_64.rpm: Already downloaded [SKIPPED] pcre-8.42-6.el8.x86_64.rpm: Already downloaded [SKIPPED] openldap-2.4.46-18.el8.x86_64.rpm: Already downloaded [SKIPPED] nettle-3.4.1-7.el8.x86_64.rpm: Already downloaded [SKIPPED] ncurses-libs-6.1-9.20180224.el8.x86_64.rpm: Already downloaded [SKIPPED] libdb-utils-5.3.28-42.el8_4.x86_64.rpm: Already downloaded [SKIPPED] filesystem-3.8-6.el8.x86_64.rpm: Already downloaded [SKIPPED] libxcrypt-4.1.1-6.el8.x86_64.rpm: Already downloaded [SKIPPED] chkconfig-1.19.1-1.el8.x86_64.rpm: Already downloaded [SKIPPED] libcap-ng-0.7.11-1.el8.x86_64.rpm: Already downloaded [SKIPPED] libdb-5.3.28-42.el8_4.x86_64.rpm: Already downloaded [SKIPPED] ncurses-6.1-9.20180224.el8.x86_64.rpm: Already downloaded [SKIPPED] libsepol-2.9-3.el8.x86_64.rpm: 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(release key 2) " Fingerprint: 567E 347A D004 4ADE 55BA 8A5F 199E 2F91 FD43 1D51 From : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat8-release Key imported successfully Importing GPG key 0x2FA658E0: Userid : "Red Hat, Inc. (auxiliary key) " Fingerprint: 43A6 E49C 4A38 F4BE 9ABF 2A53 4568 9C88 2FA6 58E0 From : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat8-release Key imported successfully Extra Packages for Enterprise Linux 8 - x86_64 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0x2F86D6A1: Userid : "Fedora EPEL (8) " Fingerprint: 94E2 79EB 8D8F 25B2 1810 ADF1 21EA 45AB 2F86 D6A1 From : /usr/share/distribution-gpg-keys/epel/RPM-GPG-KEY-EPEL-8 Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. 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libpkgconf-1.4.2-1.el8.x86_64 104/172 Installing : pkgconf-1.4.2-1.el8.x86_64 105/172 Installing : libtool-ltdl-2.4.6-25.el8.x86_64 106/172 Running scriptlet: libtool-ltdl-2.4.6-25.el8.x86_64 106/172 Installing : libnghttp2-1.33.0-3.el8_2.1.x86_64 107/172 Installing : brotli-1.0.6-3.el8.x86_64 108/172 Installing : ncurses-6.1-9.20180224.el8.x86_64 109/172 Installing : openssl-libs-1:1.1.1k-7.el8_6.x86_64 110/172 Running scriptlet: openssl-libs-1:1.1.1k-7.el8_6.x86_64 110/172 Installing : coreutils-8.30-13.el8.x86_64 111/172 Running scriptlet: ca-certificates-2022.2.54-80.2.el8_6.noarch 112/172 Installing : ca-certificates-2022.2.54-80.2.el8_6.noarch 112/172 Running scriptlet: ca-certificates-2022.2.54-80.2.el8_6.noarch 112/172 Installing : libdb-5.3.28-42.el8_4.x86_64 113/172 Running scriptlet: libdb-5.3.28-42.el8_4.x86_64 113/172 Installing : libblkid-2.32.1-38.el8.x86_64 114/172 Running scriptlet: libblkid-2.32.1-38.el8.x86_64 114/172 Installing : libmount-2.32.1-38.el8.x86_64 115/172 Running scriptlet: libmount-2.32.1-38.el8.x86_64 115/172 Installing : systemd-libs-239-68.el8.x86_64 116/172 Running scriptlet: systemd-libs-239-68.el8.x86_64 116/172 Installing : gzip-1.9-13.el8_5.x86_64 117/172 Running scriptlet: gzip-1.9-13.el8_5.x86_64 117/172 Installing : cracklib-2.9.6-15.el8.x86_64 118/172 Installing : cracklib-dicts-2.9.6-15.el8.x86_64 119/172 Installing : binutils-2.30-117.el8.x86_64 120/172 Running scriptlet: binutils-2.30-117.el8.x86_64 120/172 Installing : shadow-utils-2:4.6-17.el8.x86_64 121/172 Running scriptlet: libutempter-1.1.6-14.el8.x86_64 122/172 Installing : libutempter-1.1.6-14.el8.x86_64 122/172 Running scriptlet: tpm2-tss-2.3.2-4.el8.x86_64 123/172 Installing : tpm2-tss-2.3.2-4.el8.x86_64 123/172 Running scriptlet: tpm2-tss-2.3.2-4.el8.x86_64 123/172 Installing : ima-evm-utils-1.3.2-12.el8.x86_64 124/172 Installing : libusbx-1.0.23-4.el8.x86_64 125/172 Installing : glib2-2.56.4-159.el8.x86_64 126/172 Installing : libbabeltrace-1.5.4-4.el8.x86_64 127/172 Running scriptlet: libbabeltrace-1.5.4-4.el8.x86_64 127/172 Installing : libfdisk-2.32.1-38.el8.x86_64 128/172 Running scriptlet: libfdisk-2.32.1-38.el8.x86_64 128/172 Installing : libdb-utils-5.3.28-42.el8_4.x86_64 129/172 Installing : libarchive-3.3.3-4.el8.x86_64 130/172 Installing : libverto-0.3.2-2.el8.x86_64 131/172 Installing : krb5-libs-1.18.2-22.el8_7.x86_64 132/172 Installing : libtirpc-1.1.4-8.el8.x86_64 133/172 Running scriptlet: libtirpc-1.1.4-8.el8.x86_64 133/172 Installing : libnsl2-1.2.0-2.20180605git4a062cf.el8.x86_64 134/172 Running scriptlet: libnsl2-1.2.0-2.20180605git4a062cf.el8.x86_64 134/172 Installing : libpwquality-1.4.4-5.el8.x86_64 135/172 Installing : pam-1.3.1-22.el8.x86_64 136/172 Running scriptlet: pam-1.3.1-22.el8.x86_64 136/172 Installing : platform-python-setuptools-39.2.0-6.el8.noarch 137/172 Installing : platform-python-3.6.8-48.el8_7.x86_64 138/172 Running scriptlet: platform-python-3.6.8-48.el8_7.x86_64 138/172 Installing : python3-libs-3.6.8-48.el8_7.x86_64 139/172 Installing : cyrus-sasl-lib-2.1.27-6.el8_5.x86_64 140/172 Running scriptlet: cyrus-sasl-lib-2.1.27-6.el8_5.x86_64 140/172 Installing : openldap-2.4.46-18.el8.x86_64 141/172 Installing : gnupg2-2.2.20-3.el8_6.x86_64 142/172 Installing : libssh-0.9.6-3.el8.x86_64 143/172 Installing : libsmartcols-2.32.1-38.el8.x86_64 144/172 Running scriptlet: libsmartcols-2.32.1-38.el8.x86_64 144/172 Installing : libatomic_ops-7.6.2-3.el8.x86_64 145/172 Installing : gc-7.6.4-3.el8.x86_64 146/172 Installing : guile-5:2.0.14-7.el8.x86_64 147/172 Running scriptlet: guile-5:2.0.14-7.el8.x86_64 147/172 Installing : libipt-1.6.1-8.el8.x86_64 148/172 Installing : pkgconf-m4-1.4.2-1.el8.noarch 149/172 Installing : pkgconf-pkg-config-1.4.2-1.el8.x86_64 150/172 Installing : glibc-devel-2.28-211.el8.x86_64 151/172 Running scriptlet: glibc-devel-2.28-211.el8.x86_64 151/172 Installing : libxcrypt-devel-4.1.1-6.el8.x86_64 152/172 Installing : gcc-8.5.0-15.el8.x86_64 153/172 Running scriptlet: gcc-8.5.0-15.el8.x86_64 153/172 Installing : gcc-plugin-annobin-8.5.0-15.el8.x86_64 154/172 Installing : annobin-10.67-3.el8.x86_64 155/172 Installing : publicsuffix-list-dafsa-20180723-1.el8.noarch 156/172 Installing : libpsl-0.20.2-6.el8.x86_64 157/172 Installing : libcurl-7.61.1-25.el8.x86_64 158/172 Installing : curl-7.61.1-25.el8.x86_64 159/172 Installing : rpm-libs-4.14.3-24.el8_7.x86_64 160/172 Running scriptlet: rpm-libs-4.14.3-24.el8_7.x86_64 160/172 Installing : rpm-4.14.3-24.el8_7.x86_64 161/172 Installing : efi-srpm-macros-3-3.el8.noarch 162/172 Installing : redhat-rpm-config-130-1.el8.noarch 163/172 Running scriptlet: redhat-rpm-config-130-1.el8.noarch 163/172 Installing : lua-srpm-macros-1-3.el8.noarch 164/172 Installing : rpm-build-libs-4.14.3-24.el8_7.x86_64 165/172 Running scriptlet: rpm-build-libs-4.14.3-24.el8_7.x86_64 165/172 Installing : gdb-headless-8.2-19.el8.x86_64 166/172 Installing : rpm-build-4.14.3-24.el8_7.x86_64 167/172 Installing : epel-rpm-macros-8-35.noarch 168/172 Installing : gcc-c++-8.5.0-15.el8.x86_64 169/172 Installing : util-linux-2.32.1-38.el8.x86_64 170/172 Running scriptlet: util-linux-2.32.1-38.el8.x86_64 170/172 Installing : which-2.21-18.el8.x86_64 171/172 Installing : make-1:4.2.1-11.el8.x86_64 172/172 Running scriptlet: make-1:4.2.1-11.el8.x86_64 172/172 Running scriptlet: filesystem-3.8-6.el8.x86_64 172/172 Running scriptlet: glibc-all-langpacks-2.28-211.el8.x86_64 172/172 Running scriptlet: ca-certificates-2022.2.54-80.2.el8_6.noarch 172/172 Running scriptlet: guile-5:2.0.14-7.el8.x86_64 172/172 Running scriptlet: make-1:4.2.1-11.el8.x86_64 172/172 Verifying : cpio-2.13-8.el8.x86_64 1/172 Verifying : libassuan-2.5.1-3.el8.x86_64 2/172 Verifying : cracklib-2.9.6-15.el8.x86_64 3/172 Verifying : libutempter-1.1.6-14.el8.x86_64 4/172 Verifying : grep-3.1-6.el8.x86_64 5/172 Verifying : readline-7.0-10.el8.x86_64 6/172 Verifying : pkgconf-1.4.2-1.el8.x86_64 7/172 Verifying : libsigsegv-2.11-5.el8.x86_64 8/172 Verifying : npth-1.5-4.el8.x86_64 9/172 Verifying : cracklib-dicts-2.9.6-15.el8.x86_64 10/172 Verifying : libtasn1-4.13-3.el8.x86_64 11/172 Verifying : libattr-2.4.48-3.el8.x86_64 12/172 Verifying : pkgconf-pkg-config-1.4.2-1.el8.x86_64 13/172 Verifying : bzip2-libs-1.0.6-26.el8.x86_64 14/172 Verifying : mpfr-3.1.6-1.el8.x86_64 15/172 Verifying : zip-3.0-23.el8.x86_64 16/172 Verifying : libunistring-0.9.9-3.el8.x86_64 17/172 Verifying : bzip2-1.0.6-26.el8.x86_64 18/172 Verifying : libnsl2-1.2.0-2.20180605git4a062cf.el8.x86_64 19/172 Verifying : libpkgconf-1.4.2-1.el8.x86_64 20/172 Verifying : publicsuffix-list-dafsa-20180723-1.el8.noarch 21/172 Verifying : pkgconf-m4-1.4.2-1.el8.noarch 22/172 Verifying : findutils-1:4.6.0-20.el8.x86_64 23/172 Verifying : libacl-2.2.53-1.el8.x86_64 24/172 Verifying : basesystem-11-5.el8.noarch 25/172 Verifying : libtool-ltdl-2.4.6-25.el8.x86_64 26/172 Verifying : libgpg-error-1.31-1.el8.x86_64 27/172 Verifying : gmp-1:6.1.2-10.el8.x86_64 28/172 Verifying : diffutils-3.6-6.el8.x86_64 29/172 Verifying : libidn2-2.2.0-1.el8.x86_64 30/172 Verifying : patch-2.7.6-11.el8.x86_64 31/172 Verifying : libnghttp2-1.33.0-3.el8_2.1.x86_64 32/172 Verifying : libzstd-1.4.4-1.el8.x86_64 33/172 Verifying : python3-setuptools-wheel-39.2.0-6.el8.noarch 34/172 Verifying : libusbx-1.0.23-4.el8.x86_64 35/172 Verifying : platform-python-setuptools-39.2.0-6.el8.noarch 36/172 Verifying : p11-kit-trust-0.23.22-1.el8.x86_64 37/172 Verifying : libpsl-0.20.2-6.el8.x86_64 38/172 Verifying : popt-1.18-1.el8.x86_64 39/172 Verifying : brotli-1.0.6-3.el8.x86_64 40/172 Verifying : lz4-libs-1.8.3-3.el8_4.x86_64 41/172 Verifying : ima-evm-utils-1.3.2-12.el8.x86_64 42/172 Verifying : p11-kit-0.23.22-1.el8.x86_64 43/172 Verifying : libxcrypt-devel-4.1.1-6.el8.x86_64 44/172 Verifying : tpm2-tss-2.3.2-4.el8.x86_64 45/172 Verifying : pcre-8.42-6.el8.x86_64 46/172 Verifying : openldap-2.4.46-18.el8.x86_64 47/172 Verifying : nettle-3.4.1-7.el8.x86_64 48/172 Verifying : ncurses-libs-6.1-9.20180224.el8.x86_64 49/172 Verifying : libdb-utils-5.3.28-42.el8_4.x86_64 50/172 Verifying : filesystem-3.8-6.el8.x86_64 51/172 Verifying : libxcrypt-4.1.1-6.el8.x86_64 52/172 Verifying : chkconfig-1.19.1-1.el8.x86_64 53/172 Verifying : libcap-ng-0.7.11-1.el8.x86_64 54/172 Verifying : libdb-5.3.28-42.el8_4.x86_64 55/172 Verifying : ncurses-6.1-9.20180224.el8.x86_64 56/172 Verifying : libsepol-2.9-3.el8.x86_64 57/172 Verifying : gzip-1.9-13.el8_5.x86_64 58/172 Verifying : keyutils-libs-1.5.10-9.el8.x86_64 59/172 Verifying : ncurses-base-6.1-9.20180224.el8.noarch 60/172 Verifying : cyrus-sasl-lib-2.1.27-6.el8_5.x86_64 61/172 Verifying : lua-libs-5.3.4-12.el8.x86_64 62/172 Verifying : sed-4.5-5.el8.x86_64 63/172 Verifying : make-1:4.2.1-11.el8.x86_64 64/172 Verifying : libffi-3.1-23.el8.x86_64 65/172 Verifying : python3-pip-wheel-9.0.3-22.el8.noarch 66/172 Verifying : libssh-0.9.6-3.el8.x86_64 67/172 Verifying : gawk-4.2.1-4.el8.x86_64 68/172 Verifying : xz-libs-5.2.4-4.el8_6.x86_64 69/172 Verifying : xz-5.2.4-4.el8_6.x86_64 70/172 Verifying : crypto-policies-20211116-1.gitae470d6.el8.noarch 71/172 Verifying : info-6.5-7.el8.x86_64 72/172 Verifying : libssh-config-0.9.6-3.el8.noarch 73/172 Verifying : unzip-6.0-46.el8.x86_64 74/172 Verifying : coreutils-8.30-13.el8.x86_64 75/172 Verifying : libpwquality-1.4.4-5.el8.x86_64 76/172 Verifying : glibc-headers-2.28-211.el8.x86_64 77/172 Verifying : tar-2:1.30-6.el8.x86_64 78/172 Verifying : libfdisk-2.32.1-38.el8.x86_64 79/172 Verifying : glibc-all-langpacks-2.28-211.el8.x86_64 80/172 Verifying : libbabeltrace-1.5.4-4.el8.x86_64 81/172 Verifying : libksba-1.3.5-8.el8_6.x86_64 82/172 Verifying : libverto-0.3.2-2.el8.x86_64 83/172 Verifying : sqlite-libs-3.26.0-16.el8_6.x86_64 84/172 Verifying : libxml2-2.9.7-15.el8.x86_64 85/172 Verifying : gdbm-libs-1:1.18-2.el8.x86_64 86/172 Verifying : libsmartcols-2.32.1-38.el8.x86_64 87/172 Verifying : gnupg2-2.2.20-3.el8_6.x86_64 88/172 Verifying : coreutils-common-8.30-13.el8.x86_64 89/172 Verifying : libtirpc-1.1.4-8.el8.x86_64 90/172 Verifying : ca-certificates-2022.2.54-80.2.el8_6.noarch 91/172 Verifying : libgomp-8.5.0-15.el8.x86_64 92/172 Verifying : pcre2-10.32-3.el8_6.x86_64 93/172 Verifying : pam-1.3.1-22.el8.x86_64 94/172 Verifying : libgcrypt-1.8.5-7.el8_6.x86_64 95/172 Verifying : libblkid-2.32.1-38.el8.x86_64 96/172 Verifying : binutils-2.30-117.el8.x86_64 97/172 Verifying : glibc-devel-2.28-211.el8.x86_64 98/172 Verifying : openssl-libs-1:1.1.1k-7.el8_6.x86_64 99/172 Verifying : libcom_err-1.45.6-5.el8.x86_64 100/172 Verifying : libsemanage-2.9-9.el8_6.x86_64 101/172 Verifying : bash-4.4.20-4.el8_6.x86_64 102/172 Verifying : systemd-libs-239-68.el8.x86_64 103/172 Verifying : gnutls-3.6.16-5.el8_6.x86_64 104/172 Verifying : glibc-gconv-extra-2.28-211.el8.x86_64 105/172 Verifying : elfutils-libelf-0.187-4.el8.x86_64 106/172 Verifying : file-libs-5.33-21.el8.x86_64 107/172 Verifying : libuuid-2.32.1-38.el8.x86_64 108/172 Verifying : file-5.33-21.el8.x86_64 109/172 Verifying : which-2.21-18.el8.x86_64 110/172 Verifying : gdbm-1:1.18-2.el8.x86_64 111/172 Verifying : glibc-2.28-211.el8.x86_64 112/172 Verifying : elfutils-0.187-4.el8.x86_64 113/172 Verifying : curl-7.61.1-25.el8.x86_64 114/172 Verifying : util-linux-2.32.1-38.el8.x86_64 115/172 Verifying : glibc-common-2.28-211.el8.x86_64 116/172 Verifying : libstdc++-8.5.0-15.el8.x86_64 117/172 Verifying : setup-2.12.2-7.el8.noarch 118/172 Verifying : elfutils-libs-0.187-4.el8.x86_64 119/172 Verifying : libarchive-3.3.3-4.el8.x86_64 120/172 Verifying : zlib-1.2.11-20.el8.x86_64 121/172 Verifying : audit-libs-3.0.7-4.el8.x86_64 122/172 Verifying : expat-2.2.5-10.el8.x86_64 123/172 Verifying : libcap-2.48-4.el8.x86_64 124/172 Verifying : kernel-headers-4.18.0-425.3.1.el8.x86_64 125/172 Verifying : elfutils-default-yama-scope-0.187-4.el8.noarch 126/172 Verifying : libcurl-7.61.1-25.el8.x86_64 127/172 Verifying : shadow-utils-2:4.6-17.el8.x86_64 128/172 Verifying : glib2-2.56.4-159.el8.x86_64 129/172 Verifying : libmount-2.32.1-38.el8.x86_64 130/172 Verifying : libselinux-2.9-6.el8.x86_64 131/172 Verifying : redhat-release-8.7-0.3.el8.x86_64 132/172 Verifying : libgcc-8.5.0-15.el8.x86_64 133/172 Verifying : rpm-libs-4.14.3-24.el8_7.x86_64 134/172 Verifying : rpm-4.14.3-24.el8_7.x86_64 135/172 Verifying : python3-libs-3.6.8-48.el8_7.x86_64 136/172 Verifying : rpm-build-libs-4.14.3-24.el8_7.x86_64 137/172 Verifying : platform-python-3.6.8-48.el8_7.x86_64 138/172 Verifying : krb5-libs-1.18.2-22.el8_7.x86_64 139/172 Verifying : tzdata-2022g-1.el8.noarch 140/172 Verifying : rust-srpm-macros-5-2.el8.noarch 141/172 Verifying : ocaml-srpm-macros-5-4.el8.noarch 142/172 Verifying : ghc-srpm-macros-1.4.2-7.el8.noarch 143/172 Verifying : openblas-srpm-macros-2-2.el8.noarch 144/172 Verifying : perl-srpm-macros-1-25.el8.noarch 145/172 Verifying : libatomic_ops-7.6.2-3.el8.x86_64 146/172 Verifying : gc-7.6.4-3.el8.x86_64 147/172 Verifying : guile-5:2.0.14-7.el8.x86_64 148/172 Verifying : isl-0.16.1-6.el8.x86_64 149/172 Verifying : libipt-1.6.1-8.el8.x86_64 150/172 Verifying : zstd-1.4.4-1.el8.x86_64 151/172 Verifying : libmpc-1.1.0-9.1.el8.x86_64 152/172 Verifying : efi-srpm-macros-3-3.el8.noarch 153/172 Verifying : go-srpm-macros-2-17.el8.noarch 154/172 Verifying : dwz-0.12-10.el8.x86_64 155/172 Verifying : qt5-srpm-macros-5.15.3-1.el8.noarch 156/172 Verifying : libstdc++-devel-8.5.0-15.el8.x86_64 157/172 Verifying : python3-rpm-macros-3-43.el8.noarch 158/172 Verifying : gcc-c++-8.5.0-15.el8.x86_64 159/172 Verifying : redhat-rpm-config-130-1.el8.noarch 160/172 Verifying : gdb-headless-8.2-19.el8.x86_64 161/172 Verifying : gcc-8.5.0-15.el8.x86_64 162/172 Verifying : python-rpm-macros-3-43.el8.noarch 163/172 Verifying : python-srpm-macros-3-43.el8.noarch 164/172 Verifying : cpp-8.5.0-15.el8.x86_64 165/172 Verifying : gcc-plugin-annobin-8.5.0-15.el8.x86_64 166/172 Verifying : annobin-10.67-3.el8.x86_64 167/172 Verifying : rpm-build-4.14.3-24.el8_7.x86_64 168/172 Verifying : ansible-srpm-macros-1-8.1.el8.noarch 169/172 Verifying : epel-rpm-macros-8-35.noarch 170/172 Verifying : fpc-srpm-macros-1.3-1.el8.noarch 171/172 Verifying : lua-srpm-macros-1-3.el8.noarch 172/172 Installed products updated. Installed: annobin-10.67-3.el8.x86_64 ansible-srpm-macros-1-8.1.el8.noarch audit-libs-3.0.7-4.el8.x86_64 basesystem-11-5.el8.noarch bash-4.4.20-4.el8_6.x86_64 binutils-2.30-117.el8.x86_64 brotli-1.0.6-3.el8.x86_64 bzip2-1.0.6-26.el8.x86_64 bzip2-libs-1.0.6-26.el8.x86_64 ca-certificates-2022.2.54-80.2.el8_6.noarch chkconfig-1.19.1-1.el8.x86_64 coreutils-8.30-13.el8.x86_64 coreutils-common-8.30-13.el8.x86_64 cpio-2.13-8.el8.x86_64 cpp-8.5.0-15.el8.x86_64 cracklib-2.9.6-15.el8.x86_64 cracklib-dicts-2.9.6-15.el8.x86_64 crypto-policies-20211116-1.gitae470d6.el8.noarch curl-7.61.1-25.el8.x86_64 cyrus-sasl-lib-2.1.27-6.el8_5.x86_64 diffutils-3.6-6.el8.x86_64 dwz-0.12-10.el8.x86_64 efi-srpm-macros-3-3.el8.noarch elfutils-0.187-4.el8.x86_64 elfutils-default-yama-scope-0.187-4.el8.noarch elfutils-libelf-0.187-4.el8.x86_64 elfutils-libs-0.187-4.el8.x86_64 epel-rpm-macros-8-35.noarch expat-2.2.5-10.el8.x86_64 file-5.33-21.el8.x86_64 file-libs-5.33-21.el8.x86_64 filesystem-3.8-6.el8.x86_64 findutils-1:4.6.0-20.el8.x86_64 fpc-srpm-macros-1.3-1.el8.noarch gawk-4.2.1-4.el8.x86_64 gc-7.6.4-3.el8.x86_64 gcc-8.5.0-15.el8.x86_64 gcc-c++-8.5.0-15.el8.x86_64 gcc-plugin-annobin-8.5.0-15.el8.x86_64 gdb-headless-8.2-19.el8.x86_64 gdbm-1:1.18-2.el8.x86_64 gdbm-libs-1:1.18-2.el8.x86_64 ghc-srpm-macros-1.4.2-7.el8.noarch glib2-2.56.4-159.el8.x86_64 glibc-2.28-211.el8.x86_64 glibc-all-langpacks-2.28-211.el8.x86_64 glibc-common-2.28-211.el8.x86_64 glibc-devel-2.28-211.el8.x86_64 glibc-gconv-extra-2.28-211.el8.x86_64 glibc-headers-2.28-211.el8.x86_64 gmp-1:6.1.2-10.el8.x86_64 gnupg2-2.2.20-3.el8_6.x86_64 gnutls-3.6.16-5.el8_6.x86_64 go-srpm-macros-2-17.el8.noarch grep-3.1-6.el8.x86_64 guile-5:2.0.14-7.el8.x86_64 gzip-1.9-13.el8_5.x86_64 ima-evm-utils-1.3.2-12.el8.x86_64 info-6.5-7.el8.x86_64 isl-0.16.1-6.el8.x86_64 kernel-headers-4.18.0-425.3.1.el8.x86_64 keyutils-libs-1.5.10-9.el8.x86_64 krb5-libs-1.18.2-22.el8_7.x86_64 libacl-2.2.53-1.el8.x86_64 libarchive-3.3.3-4.el8.x86_64 libassuan-2.5.1-3.el8.x86_64 libatomic_ops-7.6.2-3.el8.x86_64 libattr-2.4.48-3.el8.x86_64 libbabeltrace-1.5.4-4.el8.x86_64 libblkid-2.32.1-38.el8.x86_64 libcap-2.48-4.el8.x86_64 libcap-ng-0.7.11-1.el8.x86_64 libcom_err-1.45.6-5.el8.x86_64 libcurl-7.61.1-25.el8.x86_64 libdb-5.3.28-42.el8_4.x86_64 libdb-utils-5.3.28-42.el8_4.x86_64 libfdisk-2.32.1-38.el8.x86_64 libffi-3.1-23.el8.x86_64 libgcc-8.5.0-15.el8.x86_64 libgcrypt-1.8.5-7.el8_6.x86_64 libgomp-8.5.0-15.el8.x86_64 libgpg-error-1.31-1.el8.x86_64 libidn2-2.2.0-1.el8.x86_64 libipt-1.6.1-8.el8.x86_64 libksba-1.3.5-8.el8_6.x86_64 libmount-2.32.1-38.el8.x86_64 libmpc-1.1.0-9.1.el8.x86_64 libnghttp2-1.33.0-3.el8_2.1.x86_64 libnsl2-1.2.0-2.20180605git4a062cf.el8.x86_64 libpkgconf-1.4.2-1.el8.x86_64 libpsl-0.20.2-6.el8.x86_64 libpwquality-1.4.4-5.el8.x86_64 libselinux-2.9-6.el8.x86_64 libsemanage-2.9-9.el8_6.x86_64 libsepol-2.9-3.el8.x86_64 libsigsegv-2.11-5.el8.x86_64 libsmartcols-2.32.1-38.el8.x86_64 libssh-0.9.6-3.el8.x86_64 libssh-config-0.9.6-3.el8.noarch libstdc++-8.5.0-15.el8.x86_64 libstdc++-devel-8.5.0-15.el8.x86_64 libtasn1-4.13-3.el8.x86_64 libtirpc-1.1.4-8.el8.x86_64 libtool-ltdl-2.4.6-25.el8.x86_64 libunistring-0.9.9-3.el8.x86_64 libusbx-1.0.23-4.el8.x86_64 libutempter-1.1.6-14.el8.x86_64 libuuid-2.32.1-38.el8.x86_64 libverto-0.3.2-2.el8.x86_64 libxcrypt-4.1.1-6.el8.x86_64 libxcrypt-devel-4.1.1-6.el8.x86_64 libxml2-2.9.7-15.el8.x86_64 libzstd-1.4.4-1.el8.x86_64 lua-libs-5.3.4-12.el8.x86_64 lua-srpm-macros-1-3.el8.noarch lz4-libs-1.8.3-3.el8_4.x86_64 make-1:4.2.1-11.el8.x86_64 mpfr-3.1.6-1.el8.x86_64 ncurses-6.1-9.20180224.el8.x86_64 ncurses-base-6.1-9.20180224.el8.noarch ncurses-libs-6.1-9.20180224.el8.x86_64 nettle-3.4.1-7.el8.x86_64 npth-1.5-4.el8.x86_64 ocaml-srpm-macros-5-4.el8.noarch openblas-srpm-macros-2-2.el8.noarch openldap-2.4.46-18.el8.x86_64 openssl-libs-1:1.1.1k-7.el8_6.x86_64 p11-kit-0.23.22-1.el8.x86_64 p11-kit-trust-0.23.22-1.el8.x86_64 pam-1.3.1-22.el8.x86_64 patch-2.7.6-11.el8.x86_64 pcre-8.42-6.el8.x86_64 pcre2-10.32-3.el8_6.x86_64 perl-srpm-macros-1-25.el8.noarch pkgconf-1.4.2-1.el8.x86_64 pkgconf-m4-1.4.2-1.el8.noarch pkgconf-pkg-config-1.4.2-1.el8.x86_64 platform-python-3.6.8-48.el8_7.x86_64 platform-python-setuptools-39.2.0-6.el8.noarch popt-1.18-1.el8.x86_64 publicsuffix-list-dafsa-20180723-1.el8.noarch python-rpm-macros-3-43.el8.noarch python-srpm-macros-3-43.el8.noarch python3-libs-3.6.8-48.el8_7.x86_64 python3-pip-wheel-9.0.3-22.el8.noarch python3-rpm-macros-3-43.el8.noarch python3-setuptools-wheel-39.2.0-6.el8.noarch qt5-srpm-macros-5.15.3-1.el8.noarch readline-7.0-10.el8.x86_64 redhat-release-8.7-0.3.el8.x86_64 redhat-rpm-config-130-1.el8.noarch rpm-4.14.3-24.el8_7.x86_64 rpm-build-4.14.3-24.el8_7.x86_64 rpm-build-libs-4.14.3-24.el8_7.x86_64 rpm-libs-4.14.3-24.el8_7.x86_64 rust-srpm-macros-5-2.el8.noarch sed-4.5-5.el8.x86_64 setup-2.12.2-7.el8.noarch shadow-utils-2:4.6-17.el8.x86_64 sqlite-libs-3.26.0-16.el8_6.x86_64 systemd-libs-239-68.el8.x86_64 tar-2:1.30-6.el8.x86_64 tpm2-tss-2.3.2-4.el8.x86_64 tzdata-2022g-1.el8.noarch unzip-6.0-46.el8.x86_64 util-linux-2.32.1-38.el8.x86_64 which-2.21-18.el8.x86_64 xz-5.2.4-4.el8_6.x86_64 xz-libs-5.2.4-4.el8_6.x86_64 zip-3.0-23.el8.x86_64 zlib-1.2.11-20.el8.x86_64 zstd-1.4.4-1.el8.x86_64 Complete! Finish: dnf install Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: libgcc-8.5.0-15.el8.x86_64 which-2.21-18.el8.x86_64 systemd-libs-239-68.el8.x86_64 ca-certificates-2022.2.54-80.2.el8_6.noarch curl-7.61.1-25.el8.x86_64 pcre2-10.32-3.el8_6.x86_64 audit-libs-3.0.7-4.el8.x86_64 libsepol-2.9-3.el8.x86_64 p11-kit-0.23.22-1.el8.x86_64 redhat-release-8.7-0.3.el8.x86_64 cracklib-dicts-2.9.6-15.el8.x86_64 coreutils-8.30-13.el8.x86_64 libksba-1.3.5-8.el8_6.x86_64 glibc-headers-2.28-211.el8.x86_64 python-rpm-macros-3-43.el8.noarch python3-rpm-macros-3-43.el8.noarch python3-pip-wheel-9.0.3-22.el8.noarch libpsl-0.20.2-6.el8.x86_64 gpg-pubkey-2fa658e0-45700c69 libselinux-2.9-6.el8.x86_64 libassuan-2.5.1-3.el8.x86_64 libgcrypt-1.8.5-7.el8_6.x86_64 ocaml-srpm-macros-5-4.el8.noarch npth-1.5-4.el8.x86_64 rust-srpm-macros-5-2.el8.noarch xz-libs-5.2.4-4.el8_6.x86_64 util-linux-2.32.1-38.el8.x86_64 libdb-utils-5.3.28-42.el8_4.x86_64 libunistring-0.9.9-3.el8.x86_64 xz-5.2.4-4.el8_6.x86_64 openldap-2.4.46-18.el8.x86_64 dwz-0.12-10.el8.x86_64 fpc-srpm-macros-1.3-1.el8.noarch shadow-utils-4.6-17.el8.x86_64 grep-3.1-6.el8.x86_64 glib2-2.56.4-159.el8.x86_64 zstd-1.4.4-1.el8.x86_64 platform-python-setuptools-39.2.0-6.el8.noarch libbabeltrace-1.5.4-4.el8.x86_64 libipt-1.6.1-8.el8.x86_64 libusbx-1.0.23-4.el8.x86_64 python3-setuptools-wheel-39.2.0-6.el8.noarch libnsl2-1.2.0-2.20180605git4a062cf.el8.x86_64 elfutils-default-yama-scope-0.187-4.el8.noarch chkconfig-1.19.1-1.el8.x86_64 setup-2.12.2-7.el8.noarch krb5-libs-1.18.2-22.el8_7.x86_64 libacl-2.2.53-1.el8.x86_64 libstdc++-8.5.0-15.el8.x86_64 gdbm-1.18-2.el8.x86_64 libmpc-1.1.0-9.1.el8.x86_64 glibc-2.28-211.el8.x86_64 ncurses-base-6.1-9.20180224.el8.noarch go-srpm-macros-2-17.el8.noarch redhat-rpm-config-130-1.el8.noarch p11-kit-trust-0.23.22-1.el8.x86_64 ncurses-libs-6.1-9.20180224.el8.x86_64 libssh-config-0.9.6-3.el8.noarch tpm2-tss-2.3.2-4.el8.x86_64 libnghttp2-1.33.0-3.el8_2.1.x86_64 libverto-0.3.2-2.el8.x86_64 libsmartcols-2.32.1-38.el8.x86_64 libtirpc-1.1.4-8.el8.x86_64 unzip-6.0-46.el8.x86_64 elfutils-libs-0.187-4.el8.x86_64 rpm-build-libs-4.14.3-24.el8_7.x86_64 libdb-5.3.28-42.el8_4.x86_64 bash-4.4.20-4.el8_6.x86_64 platform-python-3.6.8-48.el8_7.x86_64 tar-1.30-6.el8.x86_64 python3-libs-3.6.8-48.el8_7.x86_64 qt5-srpm-macros-5.15.3-1.el8.noarch make-4.2.1-11.el8.x86_64 libxcrypt-devel-4.1.1-6.el8.x86_64 sed-4.5-5.el8.x86_64 cyrus-sasl-lib-2.1.27-6.el8_5.x86_64 efi-srpm-macros-3-3.el8.noarch cracklib-2.9.6-15.el8.x86_64 libsemanage-2.9-9.el8_6.x86_64 cpio-2.13-8.el8.x86_64 libxcrypt-4.1.1-6.el8.x86_64 diffutils-3.6-6.el8.x86_64 glibc-all-langpacks-2.28-211.el8.x86_64 pkgconf-1.4.2-1.el8.x86_64 ansible-srpm-macros-1-8.1.el8.noarch nettle-3.4.1-7.el8.x86_64 pkgconf-m4-1.4.2-1.el8.noarch zlib-1.2.11-20.el8.x86_64 libatomic_ops-7.6.2-3.el8.x86_64 glibc-devel-2.28-211.el8.x86_64 lua-libs-5.3.4-12.el8.x86_64 basesystem-11-5.el8.noarch libuuid-2.32.1-38.el8.x86_64 guile-2.0.14-7.el8.x86_64 lua-srpm-macros-1-3.el8.noarch perl-srpm-macros-1-25.el8.noarch libblkid-2.32.1-38.el8.x86_64 libcap-ng-0.7.11-1.el8.x86_64 publicsuffix-list-dafsa-20180723-1.el8.noarch pkgconf-pkg-config-1.4.2-1.el8.x86_64 libxml2-2.9.7-15.el8.x86_64 gnutls-3.6.16-5.el8_6.x86_64 brotli-1.0.6-3.el8.x86_64 elfutils-0.187-4.el8.x86_64 isl-0.16.1-6.el8.x86_64 libstdc++-devel-8.5.0-15.el8.x86_64 bzip2-1.0.6-26.el8.x86_64 keyutils-libs-1.5.10-9.el8.x86_64 gpg-pubkey-2f86d6a1-5cf7cefb file-5.33-21.el8.x86_64 libutempter-1.1.6-14.el8.x86_64 gcc-c++-8.5.0-15.el8.x86_64 patch-2.7.6-11.el8.x86_64 mpfr-3.1.6-1.el8.x86_64 libcom_err-1.45.6-5.el8.x86_64 annobin-10.67-3.el8.x86_64 libcurl-7.61.1-25.el8.x86_64 bzip2-libs-1.0.6-26.el8.x86_64 rpm-build-4.14.3-24.el8_7.x86_64 libffi-3.1-23.el8.x86_64 lz4-libs-1.8.3-3.el8_4.x86_64 python-srpm-macros-3-43.el8.noarch ncurses-6.1-9.20180224.el8.x86_64 glibc-common-2.28-211.el8.x86_64 rpm-libs-4.14.3-24.el8_7.x86_64 libzstd-1.4.4-1.el8.x86_64 popt-1.18-1.el8.x86_64 binutils-2.30-117.el8.x86_64 gmp-6.1.2-10.el8.x86_64 elfutils-libelf-0.187-4.el8.x86_64 crypto-policies-20211116-1.gitae470d6.el8.noarch gawk-4.2.1-4.el8.x86_64 expat-2.2.5-10.el8.x86_64 tzdata-2022g-1.el8.noarch libgpg-error-1.31-1.el8.x86_64 libsigsegv-2.11-5.el8.x86_64 gzip-1.9-13.el8_5.x86_64 rpm-4.14.3-24.el8_7.x86_64 epel-rpm-macros-8-35.noarch ima-evm-utils-1.3.2-12.el8.x86_64 pam-1.3.1-22.el8.x86_64 libtool-ltdl-2.4.6-25.el8.x86_64 gnupg2-2.2.20-3.el8_6.x86_64 gc-7.6.4-3.el8.x86_64 libgomp-8.5.0-15.el8.x86_64 libssh-0.9.6-3.el8.x86_64 libidn2-2.2.0-1.el8.x86_64 file-libs-5.33-21.el8.x86_64 gdbm-libs-1.18-2.el8.x86_64 glibc-gconv-extra-2.28-211.el8.x86_64 libcap-2.48-4.el8.x86_64 gdb-headless-8.2-19.el8.x86_64 libtasn1-4.13-3.el8.x86_64 filesystem-3.8-6.el8.x86_64 readline-7.0-10.el8.x86_64 libfdisk-2.32.1-38.el8.x86_64 sqlite-libs-3.26.0-16.el8_6.x86_64 coreutils-common-8.30-13.el8.x86_64 libpwquality-1.4.4-5.el8.x86_64 openssl-libs-1.1.1k-7.el8_6.x86_64 zip-3.0-23.el8.x86_64 cpp-8.5.0-15.el8.x86_64 ghc-srpm-macros-1.4.2-7.el8.noarch gcc-8.5.0-15.el8.x86_64 pcre-8.42-6.el8.x86_64 libattr-2.4.48-3.el8.x86_64 libarchive-3.3.3-4.el8.x86_64 gpg-pubkey-fd431d51-4ae0493b findutils-4.6.0-20.el8.x86_64 libmount-2.32.1-38.el8.x86_64 kernel-headers-4.18.0-425.3.1.el8.x86_64 gcc-plugin-annobin-8.5.0-15.el8.x86_64 info-6.5-7.el8.x86_64 openblas-srpm-macros-2-2.el8.noarch libpkgconf-1.4.2-1.el8.x86_64 Start: buildsrpm Start: rpmbuild -bs Building target platforms: x86_64 Building for target x86_64 Wrote: /builddir/build/SRPMS/BEDTools-2.30.0-3.el8.src.rpm Finish: rpmbuild -bs cp: ‘var/lib/mock/rhel+epel-8-x86_64-1672348713.251555/root/var/log’: No such file or directory INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/rhel+epel-8-x86_64-1672348713.251555/root/var/log/dnf.rpm.log /var/lib/mock/rhel+epel-8-x86_64-1672348713.251555/root/var/log/dnf.librepo.log /var/lib/mock/rhel+epel-8-x86_64-1672348713.251555/root/var/log/dnf.log Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-9to3rn7y/BEDTools/BEDTools.spec) Config(child) 0 minutes 46 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot Finish: run Running (timeout=18000): unbuffer mock --rebuild /var/lib/copr-rpmbuild/results/BEDTools-2.30.0-3.el8.src.rpm --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1672348713.251555 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 3.5 starting (python version = 3.11.0, NVR = mock-3.5-1.fc37)... Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/var/lib/copr-rpmbuild/results/BEDTools-2.30.0-3.el8.src.rpm) Config(rhel+epel-8-x86_64) Start: clean chroot Finish: clean chroot Start: chroot init INFO: mounting tmpfs at /var/lib/mock/rhel+epel-8-x86_64-1672348713.251555/root. INFO: calling preinit hooks INFO: enabled root cache Start: unpacking root cache Finish: unpacking root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin Mock Version: 3.5 INFO: Mock Version: 3.5 Start: dnf update No matches found for the following disable plugin patterns: local, spacewalk, versionlock Updating Subscription Management repositories. Unable to read consumer identity This system is not registered with an entitlement server. You can use subscription-manager to register. Copr repository 63 kB/s | 3.7 kB 00:00 Additional repo https_copr_be_cloud_fedoraproje 71 kB/s | 3.7 kB 00:00 Red Hat Enterprise Linux - BaseOS 16 kB/s | 4.1 kB 00:00 Red Hat Enterprise Linux - AppStream 9.9 kB/s | 4.5 kB 00:00 Red Hat Enterprise Linux - CodeReady Linux Buil 20 kB/s | 4.5 kB 00:00 Extra Packages for Enterprise Linux 8 - x86_64 484 kB/s | 28 kB 00:00 Dependencies resolved. Nothing to do. Complete! Finish: dnf update Finish: chroot init Start: build phase for BEDTools-2.30.0-3.el8.src.rpm Start: build setup for BEDTools-2.30.0-3.el8.src.rpm Building target platforms: x86_64 Building for target x86_64 Wrote: /builddir/build/SRPMS/BEDTools-2.30.0-3.el8.src.rpm No matches found for the following disable plugin patterns: local, spacewalk, versionlock Updating Subscription Management repositories. Unable to read consumer identity This system is not registered with an entitlement server. You can use subscription-manager to register. Copr repository 50 kB/s | 3.7 kB 00:00 Additional repo https_copr_be_cloud_fedoraproje 66 kB/s | 3.7 kB 00:00 Red Hat Enterprise Linux - BaseOS 18 kB/s | 4.1 kB 00:00 Red Hat Enterprise Linux - AppStream 21 kB/s | 4.5 kB 00:00 Red Hat Enterprise Linux - CodeReady Linux Buil 21 kB/s | 4.5 kB 00:00 Extra Packages for Enterprise Linux 8 - x86_64 615 kB/s | 28 kB 00:00 Dependencies resolved. =========================================================================================================== Package Arch Version Repository Size =========================================================================================================== Installing: bzip2-devel x86_64 1.0.6-26.el8 rhel-baseos 224 k python3-sphinx noarch 1:1.7.6-3.el8 codeready-builder 1.7 M python36 x86_64 3.6.8-38.module+el8.5.0+12207+5c5719bc rhel-appstream 19 k xz-devel x86_64 5.2.4-4.el8_6 rhel-baseos 63 k zlib-devel x86_64 1.2.11-20.el8 rhel-baseos 58 k Installing dependencies: Lmod x86_64 8.7.7-1.el8 epel 261 k fontawesome-fonts noarch 4.7.0-4.el8 rhel-appstream 203 k fontawesome-fonts-web noarch 4.7.0-4.el8 codeready-builder 429 k fontpackages-filesystem noarch 1.44-22.el8 rhel-baseos 16 k google-roboto-slab-fonts noarch 1.100263-0.7.20150923git.el8 codeready-builder 238 k lato-fonts noarch 2.015-5.el8 rhel-appstream 3.3 M lua x86_64 5.3.4-12.el8 rhel-appstream 192 k lua-filesystem x86_64 1.6.3-7.el8 codeready-builder 36 k lua-json noarch 1.3.2-9.el8 rhel-appstream 29 k lua-lpeg x86_64 1.0.1-6.el8 rhel-appstream 67 k lua-posix x86_64 33.3.1-9.el8 codeready-builder 176 k lua-term x86_64 0.07-9.el8 epel 16 k platform-python-pip noarch 9.0.3-22.el8 rhel-baseos 1.6 M procps-ng x86_64 3.3.15-9.el8 rhel-baseos 329 k python-sphinx-locale noarch 1:1.7.6-3.el8 codeready-builder 171 k python3-babel noarch 2.5.1-7.el8 rhel-appstream 4.8 M python3-chardet noarch 3.0.4-7.el8 rhel-baseos 195 k python3-docutils noarch 0.14-12.module+el8.1.0+3334+5cb623d7 rhel-appstream 1.6 M python3-idna noarch 2.5-5.el8 rhel-baseos 97 k python3-imagesize noarch 1.0.0-2.el8 codeready-builder 16 k python3-jinja2 noarch 2.11.2-6.el8 copr_base 246 k python3-markupsafe x86_64 0.23-19.el8 rhel-appstream 39 k python3-mock noarch 2.0.0-11.el8 codeready-builder 59 k python3-packaging noarch 16.8-9.el8 codeready-builder 48 k python3-pip noarch 9.0.3-22.el8 rhel-appstream 20 k python3-pygments noarch 2.2.0-22.module+el8.5.0+10789+e4939b94 rhel-appstream 1.9 M python3-pyparsing noarch 2.1.10-7.el8 rhel-baseos 142 k python3-pysocks noarch 1.6.8-3.el8 rhel-baseos 34 k python3-pytz noarch 2017.2-9.el8 rhel-appstream 54 k python3-requests noarch 2.20.0-2.1.el8_1 rhel-baseos 123 k python3-setuptools noarch 39.2.0-6.el8 rhel-baseos 163 k python3-six noarch 1.11.0-8.el8 rhel-baseos 38 k python3-snowballstemmer noarch 1.2.1-6.el8 codeready-builder 108 k python3-sphinx-theme-alabaster noarch 0.7.9-7.el8 codeready-builder 24 k python3-sphinx_rtd_theme noarch 0.3.1-3.el8 codeready-builder 128 k python3-sphinxcontrib-websupport noarch 1.0.1-10.20180316git.el8 codeready-builder 50 k python3-sqlalchemy x86_64 1.3.2-2.module+el8.3.0+6646+6b4b10ec rhel-appstream 1.9 M python3-urllib3 noarch 1.24.2-5.el8 rhel-baseos 177 k python3-whoosh noarch 2.7.4-9.el8 codeready-builder 1.1 M tcl x86_64 1:8.6.8-2.el8 rhel-baseos 1.1 M Enabling module streams: python36 3.6 Transaction Summary =========================================================================================================== Install 45 Packages Total size: 23 M Total download size: 63 k Installed size: 93 M Downloading Packages: [SKIPPED] python3-jinja2-2.11.2-6.el8.noarch.rpm: Already downloaded [SKIPPED] bzip2-devel-1.0.6-26.el8.x86_64.rpm: Already downloaded [SKIPPED] tcl-8.6.8-2.el8.x86_64.rpm: Already downloaded [SKIPPED] fontpackages-filesystem-1.44-22.el8.noarch.rpm: Already downloaded [SKIPPED] python3-idna-2.5-5.el8.noarch.rpm: Already downloaded [SKIPPED] python3-pysocks-1.6.8-3.el8.noarch.rpm: Already downloaded [SKIPPED] python3-chardet-3.0.4-7.el8.noarch.rpm: Already downloaded [SKIPPED] python3-pyparsing-2.1.10-7.el8.noarch.rpm: Already downloaded [SKIPPED] python3-six-1.11.0-8.el8.noarch.rpm: Already downloaded [SKIPPED] python3-requests-2.20.0-2.1.el8_1.noarch.rpm: Already downloaded [SKIPPED] python3-urllib3-1.24.2-5.el8.noarch.rpm: Already downloaded [SKIPPED] python3-setuptools-39.2.0-6.el8.noarch.rpm: Already downloaded [SKIPPED] platform-python-pip-9.0.3-22.el8.noarch.rpm: Already downloaded [SKIPPED] zlib-devel-1.2.11-20.el8.x86_64.rpm: Already downloaded [SKIPPED] procps-ng-3.3.15-9.el8.x86_64.rpm: Already downloaded [SKIPPED] fontawesome-fonts-4.7.0-4.el8.noarch.rpm: Already downloaded [SKIPPED] lua-json-1.3.2-9.el8.noarch.rpm: Already downloaded [SKIPPED] python3-pytz-2017.2-9.el8.noarch.rpm: Already downloaded [SKIPPED] lato-fonts-2.015-5.el8.noarch.rpm: Already downloaded [SKIPPED] lua-lpeg-1.0.1-6.el8.x86_64.rpm: Already downloaded [SKIPPED] python3-markupsafe-0.23-19.el8.x86_64.rpm: Already downloaded [SKIPPED] python3-docutils-0.14-12.module+el8.1.0+3334+5cb623d7.noarch.rpm: Already downloaded [SKIPPED] python3-sqlalchemy-1.3.2-2.module+el8.3.0+6646+6b4b10ec.x86_64.rpm: Already downloaded [SKIPPED] python36-3.6.8-38.module+el8.5.0+12207+5c5719bc.x86_64.rpm: Already downloaded [SKIPPED] python3-pygments-2.2.0-22.module+el8.5.0+10789+e4939b94.noarch.rpm: Already downloaded [SKIPPED] lua-5.3.4-12.el8.x86_64.rpm: Already downloaded [SKIPPED] python3-babel-2.5.1-7.el8.noarch.rpm: Already downloaded [SKIPPED] python3-pip-9.0.3-22.el8.noarch.rpm: Already downloaded [SKIPPED] lua-posix-33.3.1-9.el8.x86_64.rpm: Already downloaded [SKIPPED] lua-filesystem-1.6.3-7.el8.x86_64.rpm: Already downloaded [SKIPPED] python3-sphinx_rtd_theme-0.3.1-3.el8.noarch.rpm: Already downloaded [SKIPPED] python3-mock-2.0.0-11.el8.noarch.rpm: Already downloaded [SKIPPED] python3-sphinxcontrib-websupport-1.0.1-10.20180316git.el8.noarch.rpm: Already downloaded [SKIPPED] google-roboto-slab-fonts-1.100263-0.7.20150923git.el8.noarch.rpm: Already downloaded [SKIPPED] python3-snowballstemmer-1.2.1-6.el8.noarch.rpm: Already downloaded [SKIPPED] python3-imagesize-1.0.0-2.el8.noarch.rpm: Already downloaded [SKIPPED] fontawesome-fonts-web-4.7.0-4.el8.noarch.rpm: Already downloaded [SKIPPED] python3-packaging-16.8-9.el8.noarch.rpm: Already downloaded [SKIPPED] python3-sphinx-theme-alabaster-0.7.9-7.el8.noarch.rpm: Already downloaded [SKIPPED] python3-whoosh-2.7.4-9.el8.noarch.rpm: Already downloaded [SKIPPED] python-sphinx-locale-1.7.6-3.el8.noarch.rpm: Already downloaded [SKIPPED] python3-sphinx-1.7.6-3.el8.noarch.rpm: Already downloaded [SKIPPED] Lmod-8.7.7-1.el8.x86_64.rpm: Already downloaded [SKIPPED] lua-term-0.07-9.el8.x86_64.rpm: Already downloaded (45/45): xz-devel-5.2.4-4.el8_6.x86_64.rpm 201 kB/s | 63 kB 00:00 -------------------------------------------------------------------------------- Total 184 kB/s | 63 kB 00:00 Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Preparing : 1/1 Installing : python3-six-1.11.0-8.el8.noarch 1/45 Installing : lua-5.3.4-12.el8.x86_64 2/45 Installing : python3-setuptools-39.2.0-6.el8.noarch 3/45 Installing : fontpackages-filesystem-1.44-22.el8.noarch 4/45 Installing : fontawesome-fonts-4.7.0-4.el8.noarch 5/45 Installing : fontawesome-fonts-web-4.7.0-4.el8.noarch 6/45 Installing : lato-fonts-2.015-5.el8.noarch 7/45 Installing : lua-filesystem-1.6.3-7.el8.x86_64 8/45 Installing : python3-mock-2.0.0-11.el8.noarch 9/45 Installing : lua-term-0.07-9.el8.x86_64 10/45 Installing : python-sphinx-locale-1:1.7.6-3.el8.noarch 11/45 Installing : python3-whoosh-2.7.4-9.el8.noarch 12/45 Installing : python3-sphinx-theme-alabaster-0.7.9-7.el8.noarch 13/45 Installing : python3-imagesize-1.0.0-2.el8.noarch 14/45 Installing : python3-snowballstemmer-1.2.1-6.el8.noarch 15/45 Installing : google-roboto-slab-fonts-1.100263-0.7.20150923git. 16/45 Installing : python3-sphinx_rtd_theme-0.3.1-3.el8.noarch 17/45 Installing : lua-posix-33.3.1-9.el8.x86_64 18/45 Installing : python3-sqlalchemy-1.3.2-2.module+el8.3.0+6646+6b4 19/45 Installing : python3-markupsafe-0.23-19.el8.x86_64 20/45 Installing : lua-lpeg-1.0.1-6.el8.x86_64 21/45 Installing : lua-json-1.3.2-9.el8.noarch 22/45 Installing : python3-pytz-2017.2-9.el8.noarch 23/45 Installing : python3-babel-2.5.1-7.el8.noarch 24/45 Installing : python3-jinja2-2.11.2-6.el8.noarch 25/45 Installing : procps-ng-3.3.15-9.el8.x86_64 26/45 Installing : platform-python-pip-9.0.3-22.el8.noarch 27/45 Installing : python3-pip-9.0.3-22.el8.noarch 28/45 Installing : python36-3.6.8-38.module+el8.5.0+12207+5c5719bc.x8 29/45 Running scriptlet: python36-3.6.8-38.module+el8.5.0+12207+5c5719bc.x8 29/45 Installing : python3-docutils-0.14-12.module+el8.1.0+3334+5cb62 30/45 Installing : python3-pygments-2.2.0-22.module+el8.5.0+10789+e49 31/45 Installing : python3-pyparsing-2.1.10-7.el8.noarch 32/45 Installing : python3-packaging-16.8-9.el8.noarch 33/45 Installing : python3-chardet-3.0.4-7.el8.noarch 34/45 Installing : python3-pysocks-1.6.8-3.el8.noarch 35/45 Installing : python3-urllib3-1.24.2-5.el8.noarch 36/45 Installing : python3-idna-2.5-5.el8.noarch 37/45 Installing : python3-requests-2.20.0-2.1.el8_1.noarch 38/45 Installing : tcl-1:8.6.8-2.el8.x86_64 39/45 Running scriptlet: tcl-1:8.6.8-2.el8.x86_64 39/45 Installing : Lmod-8.7.7-1.el8.x86_64 40/45 Running scriptlet: Lmod-8.7.7-1.el8.x86_64 40/45 Installing : python3-sphinxcontrib-websupport-1.0.1-10.20180316 41/45 Installing : python3-sphinx-1:1.7.6-3.el8.noarch 42/45 Installing : zlib-devel-1.2.11-20.el8.x86_64 43/45 Installing : xz-devel-5.2.4-4.el8_6.x86_64 44/45 Installing : bzip2-devel-1.0.6-26.el8.x86_64 45/45 Running scriptlet: bzip2-devel-1.0.6-26.el8.x86_64 45/45 Verifying : python3-jinja2-2.11.2-6.el8.noarch 1/45 Verifying : bzip2-devel-1.0.6-26.el8.x86_64 2/45 Verifying : tcl-1:8.6.8-2.el8.x86_64 3/45 Verifying : fontpackages-filesystem-1.44-22.el8.noarch 4/45 Verifying : python3-idna-2.5-5.el8.noarch 5/45 Verifying : python3-pysocks-1.6.8-3.el8.noarch 6/45 Verifying : python3-chardet-3.0.4-7.el8.noarch 7/45 Verifying : python3-pyparsing-2.1.10-7.el8.noarch 8/45 Verifying : python3-six-1.11.0-8.el8.noarch 9/45 Verifying : python3-requests-2.20.0-2.1.el8_1.noarch 10/45 Verifying : python3-urllib3-1.24.2-5.el8.noarch 11/45 Verifying : python3-setuptools-39.2.0-6.el8.noarch 12/45 Verifying : platform-python-pip-9.0.3-22.el8.noarch 13/45 Verifying : xz-devel-5.2.4-4.el8_6.x86_64 14/45 Verifying : zlib-devel-1.2.11-20.el8.x86_64 15/45 Verifying : procps-ng-3.3.15-9.el8.x86_64 16/45 Verifying : fontawesome-fonts-4.7.0-4.el8.noarch 17/45 Verifying : lua-json-1.3.2-9.el8.noarch 18/45 Verifying : python3-pytz-2017.2-9.el8.noarch 19/45 Verifying : lato-fonts-2.015-5.el8.noarch 20/45 Verifying : lua-lpeg-1.0.1-6.el8.x86_64 21/45 Verifying : python3-markupsafe-0.23-19.el8.x86_64 22/45 Verifying : python3-docutils-0.14-12.module+el8.1.0+3334+5cb62 23/45 Verifying : python3-sqlalchemy-1.3.2-2.module+el8.3.0+6646+6b4 24/45 Verifying : python36-3.6.8-38.module+el8.5.0+12207+5c5719bc.x8 25/45 Verifying : python3-pygments-2.2.0-22.module+el8.5.0+10789+e49 26/45 Verifying : lua-5.3.4-12.el8.x86_64 27/45 Verifying : python3-babel-2.5.1-7.el8.noarch 28/45 Verifying : python3-pip-9.0.3-22.el8.noarch 29/45 Verifying : lua-posix-33.3.1-9.el8.x86_64 30/45 Verifying : lua-filesystem-1.6.3-7.el8.x86_64 31/45 Verifying : python3-sphinx_rtd_theme-0.3.1-3.el8.noarch 32/45 Verifying : python3-mock-2.0.0-11.el8.noarch 33/45 Verifying : python3-sphinxcontrib-websupport-1.0.1-10.20180316 34/45 Verifying : google-roboto-slab-fonts-1.100263-0.7.20150923git. 35/45 Verifying : python3-snowballstemmer-1.2.1-6.el8.noarch 36/45 Verifying : python3-imagesize-1.0.0-2.el8.noarch 37/45 Verifying : fontawesome-fonts-web-4.7.0-4.el8.noarch 38/45 Verifying : python3-packaging-16.8-9.el8.noarch 39/45 Verifying : python3-sphinx-theme-alabaster-0.7.9-7.el8.noarch 40/45 Verifying : python3-whoosh-2.7.4-9.el8.noarch 41/45 Verifying : python-sphinx-locale-1:1.7.6-3.el8.noarch 42/45 Verifying : python3-sphinx-1:1.7.6-3.el8.noarch 43/45 Verifying : Lmod-8.7.7-1.el8.x86_64 44/45 Verifying : lua-term-0.07-9.el8.x86_64 45/45 Installed products updated. Installed: Lmod-8.7.7-1.el8.x86_64 bzip2-devel-1.0.6-26.el8.x86_64 fontawesome-fonts-4.7.0-4.el8.noarch fontawesome-fonts-web-4.7.0-4.el8.noarch fontpackages-filesystem-1.44-22.el8.noarch google-roboto-slab-fonts-1.100263-0.7.20150923git.el8.noarch lato-fonts-2.015-5.el8.noarch lua-5.3.4-12.el8.x86_64 lua-filesystem-1.6.3-7.el8.x86_64 lua-json-1.3.2-9.el8.noarch lua-lpeg-1.0.1-6.el8.x86_64 lua-posix-33.3.1-9.el8.x86_64 lua-term-0.07-9.el8.x86_64 platform-python-pip-9.0.3-22.el8.noarch procps-ng-3.3.15-9.el8.x86_64 python-sphinx-locale-1:1.7.6-3.el8.noarch python3-babel-2.5.1-7.el8.noarch python3-chardet-3.0.4-7.el8.noarch python3-docutils-0.14-12.module+el8.1.0+3334+5cb623d7.noarch python3-idna-2.5-5.el8.noarch python3-imagesize-1.0.0-2.el8.noarch python3-jinja2-2.11.2-6.el8.noarch python3-markupsafe-0.23-19.el8.x86_64 python3-mock-2.0.0-11.el8.noarch python3-packaging-16.8-9.el8.noarch python3-pip-9.0.3-22.el8.noarch python3-pygments-2.2.0-22.module+el8.5.0+10789+e4939b94.noarch python3-pyparsing-2.1.10-7.el8.noarch python3-pysocks-1.6.8-3.el8.noarch python3-pytz-2017.2-9.el8.noarch python3-requests-2.20.0-2.1.el8_1.noarch python3-setuptools-39.2.0-6.el8.noarch python3-six-1.11.0-8.el8.noarch python3-snowballstemmer-1.2.1-6.el8.noarch python3-sphinx-1:1.7.6-3.el8.noarch python3-sphinx-theme-alabaster-0.7.9-7.el8.noarch python3-sphinx_rtd_theme-0.3.1-3.el8.noarch python3-sphinxcontrib-websupport-1.0.1-10.20180316git.el8.noarch python3-sqlalchemy-1.3.2-2.module+el8.3.0+6646+6b4b10ec.x86_64 python3-urllib3-1.24.2-5.el8.noarch python3-whoosh-2.7.4-9.el8.noarch python36-3.6.8-38.module+el8.5.0+12207+5c5719bc.x86_64 tcl-1:8.6.8-2.el8.x86_64 xz-devel-5.2.4-4.el8_6.x86_64 zlib-devel-1.2.11-20.el8.x86_64 Complete! Finish: build setup for BEDTools-2.30.0-3.el8.src.rpm Start: rpmbuild BEDTools-2.30.0-3.el8.src.rpm Building target platforms: x86_64 Building for target x86_64 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.nBOtnE + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf bedtools2-2.30.0 + /usr/bin/gzip -dc /builddir/build/SOURCES/bedtools2-2.30.0.tar.gz + /usr/bin/tar -xof - + STATUS=0 + '[' 0 -ne 0 ']' + cd bedtools2-2.30.0 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . Patch #1 (BEDTools-python3.patch): + echo 'Patch #1 (BEDTools-python3.patch):' + /usr/bin/patch --no-backup-if-mismatch -p1 -b --suffix .BEDTools.python3 --fuzz=0 patching file Makefile patching file scripts/makeBashScripts.py patching file test/fisher/cmp.sh + rm -rf src/utils/curl + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.bfoBK2 + umask 022 + cd /builddir/build/BUILD + cd bedtools2-2.30.0 + make -j2 'CXXFLAGS=-I. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' V=1 Building BEDTools: DETECTED_VERSION = v2.30.0 CURRENT_VERSION = Updating version file. ========================================================= CXXFLAGS is [-g -Wall -O2 -std=c++11 -I. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection] cd src/utils/htslib && make config.h make[1]: Entering directory '/builddir/build/BUILD/bedtools2-2.30.0/src/utils/htslib' * compiling src/htsutil.cpp echo '/* Default config.h generated by Makefile */' > config.h echo '#define HAVE_LIBBZ2 1' >> config.h echo '#define HAVE_LIBLZMA 1' >> config.h echo '#ifndef __APPLE__' >> config.h echo '#define HAVE_LZMA_H 1' >> config.h echo '#endif' >> config.h echo '#define HAVE_FSEEKO 1' >> config.h echo '#define HAVE_DRAND48 1' >> config.h make[1]: Leaving directory '/builddir/build/BUILD/bedtools2-2.30.0/src/utils/htslib' * compiling src/bedtools.cpp * compiling src/annotateBed/annotateMain.cpp * compiling src/annotateBed/annotateBed.cpp * compiling src/bamToBed/bamToBed.cpp src/bamToBed/bamToBed.cpp: In function 'int bamtobed_main(int, char**)': src/bamToBed/bamToBed.cpp:88:10: warning: variable 'useAlignmentScore' set but not used [-Wunused-but-set-variable] bool useAlignmentScore = false; ^~~~~~~~~~~~~~~~~ In file included from src/utils/BamTools/include/api/BamReader.h:1, from src/bamToBed/bamToBed.cpp:12: src/utils/BamTools/include/SamHeader.hpp: In function 'int htslib_future::sam_hdr_rebuild(bam_hdr_t*)': src/utils/BamTools/include/SamHeader.hpp:32:16: warning: ignoring return value of 'int sam_hdr_write(samFile*, const bam_hdr_t*)', declared with attribute warn_unused_result [-Wunused-result] sam_hdr_write(fp, hdr); ~~~~~~~~~~~~~^~~~~~~~~ * compiling src/bamToFastq/bamToFastqMain.cpp src/bamToFastq/bamToFastqMain.cpp: In function 'int bamtofastq_main(int, char**)': src/bamToFastq/bamToFastqMain.cpp:38:10: warning: variable 'haveFastq2' set but not used [-Wunused-but-set-variable] bool haveFastq2 = false; ^~~~~~~~~~ * compiling src/bamToFastq/bamToFastq.cpp In file included from src/utils/BamTools/include/api/BamReader.h:1, from src/bamToFastq/bamToFastq.h:15, from src/bamToFastq/bamToFastq.cpp:15: src/utils/BamTools/include/SamHeader.hpp: In function 'int htslib_future::sam_hdr_rebuild(bam_hdr_t*)': src/utils/BamTools/include/SamHeader.hpp:32:16: warning: ignoring return value of 'int sam_hdr_write(samFile*, const bam_hdr_t*)', declared with attribute warn_unused_result [-Wunused-result] sam_hdr_write(fp, hdr); ~~~~~~~~~~~~~^~~~~~~~~ * compiling src/bedToBam/bedToBam.cpp src/bedToBam/bedToBam.cpp: In function 'int bedtobam_main(int, char**)': src/bedToBam/bedToBam.cpp:60:10: warning: variable 'haveMapQual' set but not used [-Wunused-but-set-variable] bool haveMapQual = false; ^~~~~~~~~~~ * compiling src/bedpeToBam/bedpeToBam.cpp src/bedpeToBam/bedpeToBam.cpp: In function 'int bedpetobam_main(int, char**)': src/bedpeToBam/bedpeToBam.cpp:61:10: warning: variable 'haveMapQual' set but not used [-Wunused-but-set-variable] bool haveMapQual = false; ^~~~~~~~~~~ * compiling src/bedToIgv/bedToIgv.cpp * compiling src/bed12ToBed6/bed12ToBed6.cpp * compiling src/closestFile/closestHelp.cpp * compiling src/closestFile/closestFile.cpp * compiling src/clusterBed/clusterMain.cpp src/clusterBed/clusterMain.cpp: In function 'int cluster_main(int, char**)': src/clusterBed/clusterMain.cpp:38:10: warning: variable 'haveMaxDistance' set but not used [-Wunused-but-set-variable] bool haveMaxDistance = false; ^~~~~~~~~~~~~~~ * compiling src/clusterBed/clusterBed.cpp * compiling src/complementFile/complementHelp.cpp * compiling src/complementFile/complementFile.cpp * compiling src/coverageFile/coverageHelp.cpp * compiling src/coverageFile/coverageFile.cpp * compiling src/expand/expand.cpp src/coverageFile/coverageFile.cpp: In member function 'virtual void CoverageFile::giveFinalReport(RecordOutputMgr*)': src/coverageFile/coverageFile.cpp:100:11: warning: ignoring return value of 'int asprintf(char**, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] asprintf(&depthPctString, "%0.7f", depthPct); ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/coverageFile/coverageFile.cpp: In member function 'void CoverageFile::doMean(RecordOutputMgr*, RecordKeyVector&)': src/coverageFile/coverageFile.cpp:181:10: warning: ignoring return value of 'int asprintf(char**, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] asprintf(&meanString, "%0.7f", mean); ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/coverageFile/coverageFile.cpp: In member function 'void CoverageFile::doHist(RecordOutputMgr*, RecordKeyVector&)': src/coverageFile/coverageFile.cpp:210:11: warning: ignoring return value of 'int asprintf(char**, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] asprintf(&coveredFractionString, "%0.7f", coveredFraction); ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/coverageFile/coverageFile.cpp: In member function 'void CoverageFile::doDefault(RecordOutputMgr*, RecordKeyVector&)': src/coverageFile/coverageFile.cpp:230:10: warning: ignoring return value of 'int asprintf(char**, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] asprintf(&coveredFractionString, "%0.7f", coveredFraction); ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ * compiling src/fastaFromBed/fastaFromBedMain.cpp * compiling src/fastaFromBed/fastaFromBed.cpp * compiling src/flankBed/flankBedMain.cpp * compiling src/flankBed/flankBed.cpp * compiling src/genomeCoverageBed/genomeCoverageMain.cpp * compiling src/genomeCoverageBed/genomeCoverageBed.cpp * compiling src/getOverlap/getOverlap.cpp src/getOverlap/getOverlap.cpp: In function 'int getoverlap_main(int, char**)': src/getOverlap/getOverlap.cpp:44:10: warning: variable 'haveColumns' set but not used [-Wunused-but-set-variable] bool haveColumns = false; ^~~~~~~~~~~ In file included from src/utils/BamTools/include/api/BamReader.h:1, from src/utils/GenomeFile/NewGenomeFile.h:20, from src/genomeCoverageBed/genomeCoverageBed.h:13, from src/genomeCoverageBed/genomeCoverageBed.cpp:13: src/utils/BamTools/include/SamHeader.hpp: In function 'int htslib_future::sam_hdr_rebuild(bam_hdr_t*)': src/utils/BamTools/include/SamHeader.hpp:32:16: warning: ignoring return value of 'int sam_hdr_write(samFile*, const bam_hdr_t*)', declared with attribute warn_unused_result [-Wunused-result] sam_hdr_write(fp, hdr); ~~~~~~~~~~~~~^~~~~~~~~ * compiling src/groupBy/groupByHelp.cpp * compiling src/groupBy/groupBy.cpp * compiling src/intersectFile/intersectHelp.cpp * compiling src/intersectFile/intersectFile.cpp * compiling src/fisher/fisherHelp.cpp * compiling src/fisher/fisher.cpp * compiling src/fisher/kfunc.cpp * compiling src/jaccard/jaccardHelp.cpp * compiling src/jaccard/jaccard.cpp * compiling src/linksBed/linksMain.cpp * compiling src/linksBed/linksBed.cpp * compiling src/maskFastaFromBed/maskFastaFromBedMain.cpp * compiling src/maskFastaFromBed/maskFastaFromBed.cpp * compiling src/mapFile/mapHelp.cpp * compiling src/mapFile/mapFile.cpp * compiling src/mergeFile/mergeHelp.cpp * compiling src/mergeFile/mergeFile.cpp * compiling src/multiBamCov/multiBamCovMain.cpp * compiling src/multiBamCov/multiBamCov.cpp src/multiBamCov/multiBamCovMain.cpp: In function 'int multibamcov_main(int, char**)': src/multiBamCov/multiBamCovMain.cpp:38:10: warning: variable 'haveBed' set but not used [-Wunused-but-set-variable] bool haveBed = false; ^~~~~~~ src/multiBamCov/multiBamCovMain.cpp:39:10: warning: variable 'haveBams' set but not used [-Wunused-but-set-variable] bool haveBams = false; ^~~~~~~~ src/multiBamCov/multiBamCovMain.cpp:47:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable] bool haveFraction = false; ^~~~~~~~~~~~ In file included from src/utils/BamTools/include/BamReader.hpp:4, from src/utils/BamTools/include/api/BamMultiReader.h:4, from src/multiBamCov/multiBamCov.h:16, from src/multiBamCov/multiBamCov.cpp:13: src/utils/BamTools/include/SamHeader.hpp: In function 'int htslib_future::sam_hdr_rebuild(bam_hdr_t*)': src/utils/BamTools/include/SamHeader.hpp:32:16: warning: ignoring return value of 'int sam_hdr_write(samFile*, const bam_hdr_t*)', declared with attribute warn_unused_result [-Wunused-result] sam_hdr_write(fp, hdr); ~~~~~~~~~~~~~^~~~~~~~~ * compiling src/multiIntersectBed/multiIntersectBedMain.cpp src/multiIntersectBed/multiIntersectBedMain.cpp: In function 'int multiintersect_main(int, char**)': src/multiIntersectBed/multiIntersectBedMain.cpp:45:10: warning: variable 'haveFiles' set but not used [-Wunused-but-set-variable] bool haveFiles = false; ^~~~~~~~~ src/multiIntersectBed/multiIntersectBedMain.cpp:47:10: warning: variable 'haveGenome' set but not used [-Wunused-but-set-variable] bool haveGenome = false; ^~~~~~~~~~ src/multiIntersectBed/multiIntersectBedMain.cpp:48:10: warning: variable 'haveFiller' set but not used [-Wunused-but-set-variable] bool haveFiller = true; ^~~~~~~~~~ * compiling src/multiIntersectBed/multiIntersectBed.cpp * compiling src/nucBed/nucBedMain.cpp * compiling src/nucBed/nucBed.cpp * compiling src/pairToBed/pairToBedMain.cpp * compiling src/pairToBed/pairToBed.cpp src/pairToBed/pairToBedMain.cpp: In function 'int pairtobed_main(int, char**)': src/pairToBed/pairToBedMain.cpp:43:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable] bool haveFraction = false; ^~~~~~~~~~~~ src/pairToBed/pairToBed.cpp: In member function 'void BedIntersectPE::FindSpanningOverlaps(const BEDPE&, std::vector&, const string&)': src/pairToBed/pairToBed.cpp:257:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable] CHRPOS spanLength = 0; ^~~~~~~~~~ src/pairToBed/pairToBed.cpp: In member function 'bool BedIntersectPE::FindOneOrMoreSpanningOverlaps(const BEDPE&, const string&)': src/pairToBed/pairToBed.cpp:310:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable] CHRPOS spanLength = 0; ^~~~~~~~~~ In file included from src/utils/BamTools/include/api/BamReader.h:1, from src/pairToBed/pairToBed.h:15, from src/pairToBed/pairToBed.cpp:13: src/utils/BamTools/include/SamHeader.hpp: In function 'int htslib_future::sam_hdr_rebuild(bam_hdr_t*)': src/utils/BamTools/include/SamHeader.hpp:32:16: warning: ignoring return value of 'int sam_hdr_write(samFile*, const bam_hdr_t*)', declared with attribute warn_unused_result [-Wunused-result] sam_hdr_write(fp, hdr); ~~~~~~~~~~~~~^~~~~~~~~ * compiling src/pairToPair/pairToPairMain.cpp src/pairToPair/pairToPairMain.cpp: In function 'int pairtopair_main(int, char**)': src/pairToPair/pairToPairMain.cpp:44:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable] bool haveFraction = false; ^~~~~~~~~~~~ * compiling src/pairToPair/pairToPair.cpp src/pairToPair/pairToPair.cpp: In member function 'void PairToPair::FindOverlaps(const BEDPE&)': src/pairToPair/pairToPair.cpp:112:14: warning: variable 'found1' set but not used [-Wunused-but-set-variable] bool found1 = false; ^~~~~~ src/pairToPair/pairToPair.cpp:113:14: warning: variable 'found2' set but not used [-Wunused-but-set-variable] bool found2 = false; ^~~~~~ * compiling src/randomBed/randomBedMain.cpp * compiling src/randomBed/randomBed.cpp * compiling src/regressTest/regressTestMain.cpp * compiling src/regressTest/RegressTest.cpp * compiling src/reldist/reldistMain.cpp src/regressTest/RegressTest.cpp: In member function 'bool RegressTest::executeAndCompareCorrectness(const fileListType&)': src/regressTest/RegressTest.cpp:431:8: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] system(diffCmd.c_str()); ~~~~~~^~~~~~~~~~~~~~~~~ src/regressTest/RegressTest.cpp: In member function 'bool RegressTest::startMemoryProfile(bool)': src/regressTest/RegressTest.cpp:573:7: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(sLine, 4192, fp); ~~~~~^~~~~~~~~~~~~~~~~ src/regressTest/RegressTest.cpp: In member function 'bool RegressTest::calcMemoryStats()': src/regressTest/RegressTest.cpp:622:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(sLine, 4192, fp); ~~~~~^~~~~~~~~~~~~~~~~ * compiling src/reldist/reldist.cpp src/reldist/reldist.cpp: In member function 'void RelativeDistance::CalculateRelativeDistance()': src/reldist/reldist.cpp:129:25: warning: comparison of integer expressions of different signedness: 'CHRPOS' {aka 'long int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] if (low_idx != chrom_mids->size() - 1) ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ * compiling src/sampleFile/sampleHelp.cpp * compiling src/sampleFile/sampleFile.cpp * compiling src/shiftBed/shiftBedMain.cpp * compiling src/shiftBed/shiftBed.cpp * compiling src/shuffleBed/shuffleBedMain.cpp * compiling src/shuffleBed/shuffleBed.cpp * compiling src/slopBed/slopBedMain.cpp * compiling src/slopBed/slopBed.cpp * compiling src/sortBed/sortMain.cpp * compiling src/sortBed/sortBed.cpp * compiling src/spacingFile/spacingHelp.cpp * compiling src/spacingFile/spacingFile.cpp * compiling src/split/splitBedMain.cpp * compiling src/split/splitBed.cpp * compiling src/subtractFile/subtractHelp.cpp * compiling src/subtractFile/subtractFile.cpp * compiling src/summaryFile/summaryHelp.cpp * compiling src/summaryFile/summaryFile.cpp * compiling src/tagBam/tagBamMain.cpp * compiling src/tagBam/tagBam.cpp * compiling src/unionBedGraphs/unionBedGraphsMain.cpp In file included from src/utils/BamTools/include/api/BamReader.h:1, from src/tagBam/tagBam.h:17, from src/tagBam/tagBam.cpp:13: src/utils/BamTools/include/SamHeader.hpp: In function 'int htslib_future::sam_hdr_rebuild(bam_hdr_t*)': src/utils/BamTools/include/SamHeader.hpp:32:16: warning: ignoring return value of 'int sam_hdr_write(samFile*, const bam_hdr_t*)', declared with attribute warn_unused_result [-Wunused-result] sam_hdr_write(fp, hdr); ~~~~~~~~~~~~~^~~~~~~~~ src/unionBedGraphs/unionBedGraphsMain.cpp: In function 'int unionbedgraphs_main(int, char**)': src/unionBedGraphs/unionBedGraphsMain.cpp:46:10: warning: variable 'haveFiles' set but not used [-Wunused-but-set-variable] bool haveFiles = false; ^~~~~~~~~ src/unionBedGraphs/unionBedGraphsMain.cpp:48:10: warning: variable 'haveGenome' set but not used [-Wunused-but-set-variable] bool haveGenome = false; ^~~~~~~~~~ src/unionBedGraphs/unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-Wunused-but-set-variable] bool haveFiller = true; ^~~~~~~~~~ * compiling src/unionBedGraphs/unionBedGraphs.cpp * compiling src/windowBed/windowMain.cpp * compiling src/windowBed/windowBed.cpp * compiling src/windowMaker/windowMakerMain.cpp In file included from src/utils/BamTools/include/api/BamReader.h:1, from src/windowBed/windowBed.h:15, from src/windowBed/windowBed.cpp:13: src/utils/BamTools/include/SamHeader.hpp: In function 'int htslib_future::sam_hdr_rebuild(bam_hdr_t*)': src/utils/BamTools/include/SamHeader.hpp:32:16: warning: ignoring return value of 'int sam_hdr_write(samFile*, const bam_hdr_t*)', declared with attribute warn_unused_result [-Wunused-result] sam_hdr_write(fp, hdr); ~~~~~~~~~~~~~^~~~~~~~~ * compiling src/windowMaker/windowMaker.cpp * compiling src/utils/FileRecordTools/FileRecordMgr.cpp * compiling src/utils/FileRecordTools/FileRecordMergeMgr.cpp * compiling src/utils/FileRecordTools/FileReaders/FileReader.cpp * compiling src/utils/FileRecordTools/FileReaders/SingleLineDelimTextFileReader.cpp * compiling src/utils/FileRecordTools/FileReaders/BamFileReader.cpp * compiling src/utils/FileRecordTools/FileReaders/BufferedStreamMgr.cpp src/utils/FileRecordTools/FileReaders/BufferedStreamMgr.cpp: In member function 'bool BufferedStreamMgr::readFileChunk()': src/utils/FileRecordTools/FileReaders/BufferedStreamMgr.cpp:148:23: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] if (_mainBufCurrLen < _useBufSize) { ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ * compiling src/utils/FileRecordTools/FileReaders/InputStreamMgr.cpp * compiling src/utils/FileRecordTools/Records/Record.cpp In file included from src/utils/BamTools/include/api/BamReader.h:1, from src/utils/FileRecordTools/FileReaders/InputStreamMgr.h:14, from src/utils/FileRecordTools/FileReaders/InputStreamMgr.cpp:8: src/utils/BamTools/include/SamHeader.hpp: In function 'int htslib_future::sam_hdr_rebuild(bam_hdr_t*)': src/utils/BamTools/include/SamHeader.hpp:32:16: warning: ignoring return value of 'int sam_hdr_write(samFile*, const bam_hdr_t*)', declared with attribute warn_unused_result [-Wunused-result] sam_hdr_write(fp, hdr); ~~~~~~~~~~~~~^~~~~~~~~ * compiling src/utils/FileRecordTools/Records/EmptyRecord.cpp * compiling src/utils/FileRecordTools/Records/Bed3Interval.cpp * compiling src/utils/FileRecordTools/Records/Bed4Interval.cpp * compiling src/utils/FileRecordTools/Records/BedGraphInterval.cpp * compiling src/utils/FileRecordTools/Records/Bed5Interval.cpp * compiling src/utils/FileRecordTools/Records/Bed6Interval.cpp * compiling src/utils/FileRecordTools/Records/PlusFields.cpp * compiling src/utils/FileRecordTools/Records/GffRecord.cpp * compiling src/utils/FileRecordTools/Records/GffPlusRecord.cpp * compiling src/utils/FileRecordTools/Records/NoPosPlusRecord.cpp * compiling src/utils/FileRecordTools/Records/BedPlusInterval.cpp * compiling src/utils/FileRecordTools/Records/Bed12Interval.cpp * compiling src/utils/FileRecordTools/Records/BamRecord.cpp * compiling src/utils/FileRecordTools/Records/VcfRecord.cpp * compiling src/utils/FileRecordTools/Records/BlockMgr.cpp src/utils/FileRecordTools/Records/BlockMgr.cpp: In member function 'int BlockMgr::getNonRedundantOverlap()': src/utils/FileRecordTools/Records/BlockMgr.cpp:194:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] for (int i = 1; i < _overlapStarts.size(); ++i) ~~^~~~~~~~~~~~~~~~~~~~~~~ * compiling src/utils/FileRecordTools/Records/StrandQueue.cpp * compiling src/utils/FileRecordTools/Records/RecordMgr.cpp * compiling src/utils/FileRecordTools/Records/RecordList.cpp * compiling src/utils/FileRecordTools/Records/RecordKeyList.cpp * compiling src/utils/FileRecordTools/Records/RecordKeyVector.cpp * compiling src/utils/bedFile/bedFile.cpp * compiling src/utils/BinTree/BinTree.cpp * compiling src/utils/version/version.cpp * compiling src/utils/bedGraphFile/bedGraphFile.cpp * compiling src/utils/chromsweep/chromsweep.cpp * compiling src/utils/Contexts/ContextBase.cpp * compiling src/utils/Contexts/ContextIntersect.cpp * compiling src/utils/Contexts/ContextFisher.cpp * compiling src/utils/Contexts/ContextMap.cpp * compiling src/utils/Contexts/ContextSample.cpp * compiling src/utils/Contexts/ContextSpacing.cpp * compiling src/utils/Contexts/ContextMerge.cpp * compiling src/utils/Contexts/ContextJaccard.cpp * compiling src/utils/Contexts/ContextClosest.cpp * compiling src/utils/Contexts/ContextSubtract.cpp * compiling src/utils/Contexts/ContextCoverage.cpp * compiling src/utils/Contexts/ContextComplement.cpp * compiling src/utils/Contexts/ContextGroupBy.cpp * compiling src/utils/Contexts/ContextSummary.cpp * compiling src/utils/general/ParseTools.cpp * compiling src/utils/general/PushBackStreamBuf.cpp * compiling src/utils/general/CompressionTools.cpp * compiling src/utils/general/Tokenizer.cpp * compiling src/utils/general/CommonHelp.cpp * compiling src/utils/general/ErrorMsg.cpp * compiling src/utils/general/Random.cpp g++ -g -Wall -O2 -std=c++11 -I. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Isrc/utils/gzstream -c -o obj/gzstream.o src/utils/gzstream/gzstream.C * compiling src/utils/fileType/fileType.cpp * compiling src/utils/fileType/FileRecordTypeChecker.cpp * compiling src/utils/bedFilePE/bedFilePE.cpp src/utils/fileType/FileRecordTypeChecker.cpp: In member function 'bool FileRecordTypeChecker::isTextDelimtedFormat(const char*, size_t)': src/utils/fileType/FileRecordTypeChecker.cpp:366:19: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] for (int j=0; j < len; j++) { ~~^~~~~ * compiling src/utils/KeyListOps/KeyListOps.cpp * compiling src/utils/KeyListOps/KeyListOpsMethods.cpp * compiling src/utils/NewChromsweep/NewChromsweep.cpp * compiling src/utils/NewChromsweep/CloseSweep.cpp * compiling src/utils/sequenceUtilities/sequenceUtils.cpp * compiling src/utils/tabFile/tabFile.cpp * compiling src/utils/BamTools-Ancillary/BamAncillary.cpp * compiling src/utils/BlockedIntervals/BlockedIntervals.cpp * compiling src/utils/Fasta/Fasta.cpp * compiling src/utils/Fasta/split.cpp src/utils/Fasta/Fasta.cpp: In member function 'std::__cxx11::string FastaReference::getSequence(std::__cxx11::string)': src/utils/Fasta/Fasta.cpp:292:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(seq, sizeof(char), seqlen, file); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/utils/Fasta/Fasta.cpp: In member function 'std::__cxx11::string FastaReference::getSubSequence(std::__cxx11::string, CHRPOS, CHRPOS)': src/utils/Fasta/Fasta.cpp:334:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(seq, sizeof(char), (off_t) seqlen, file); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ * compiling src/utils/VectorOps/VectorOps.cpp * compiling src/utils/GenomeFile/NewGenomeFile.cpp * compiling src/utils/GenomeFile/GenomeFile.cpp * compiling src/utils/RecordOutputMgr/RecordOutputMgr.cpp src/utils/GenomeFile/GenomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()': src/utils/GenomeFile/GenomeFile.cpp:60:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable] long c2; ^~ src/utils/RecordOutputMgr/RecordOutputMgr.cpp: In member function 'void RecordOutputMgr::printClosest(RecordKeyVector&, const std::vector*)': src/utils/RecordOutputMgr/RecordOutputMgr.cpp:170:42: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] if (context->getNumClosestHitsWanted() > keyList.size()) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ src/utils/RecordOutputMgr/RecordOutputMgr.cpp: In member function 'void RecordOutputMgr::reportOverlapSummary(RecordKeyVector&)': src/utils/RecordOutputMgr/RecordOutputMgr.cpp:455:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] for (size_t i = 1; i < _context->getNumInputFiles(); i++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ * compiling src/utils/ToolBase/ToolBase.cpp * compiling src/utils/driver/BedtoolsDriver.cpp cd src/utils/htslib && make lib-static make[1]: Entering directory '/builddir/build/BUILD/bedtools2-2.30.0/src/utils/htslib' gcc -g -Wall -O2 -I. -c -o kfunc.o kfunc.c gcc -g -Wall -O2 -I. -c -o knetfile.o knetfile.c gcc -g -Wall -O2 -I. -c -o kstring.o kstring.c gcc -g -Wall -O2 -I. -c -o bcf_sr_sort.o bcf_sr_sort.c - Creating executables for old CLI. done. gcc -g -Wall -O2 -I. -c -o bgzf.o bgzf.c gcc -g -Wall -O2 -I. -c -o errmod.o errmod.c gcc -g -Wall -O2 -I. -c -o faidx.o faidx.c gcc -g -Wall -O2 -I. -c -o hfile.o hfile.c gcc -g -Wall -O2 -I. -c -o hfile_net.o hfile_net.c echo '#define HTS_VERSION "1.9"' > version.h gcc -g -Wall -O2 -I. -c -o hts_os.o hts_os.c gcc -g -Wall -O2 -I. -c -o md5.o md5.c gcc -g -Wall -O2 -I. -c -o multipart.o multipart.c gcc -g -Wall -O2 -I. -c -o probaln.o probaln.c gcc -g -Wall -O2 -I. -c -o realn.o realn.c gcc -g -Wall -O2 -I. -c -o regidx.o regidx.c gcc -g -Wall -O2 -I. -c -o sam.o sam.c gcc -g -Wall -O2 -I. -c -o synced_bcf_reader.o synced_bcf_reader.c gcc -g -Wall -O2 -I. -c -o vcf_sweep.o vcf_sweep.c gcc -g -Wall -O2 -I. -c -o tbx.o tbx.c gcc -g -Wall -O2 -I. -c -o textutils.o textutils.c gcc -g -Wall -O2 -I. -c -o thread_pool.o thread_pool.c gcc -g -Wall -O2 -I. -c -o vcf.o vcf.c gcc -g -Wall -O2 -I. -c -o vcfutils.o vcfutils.c gcc -g -Wall -O2 -I. -c -o cram/cram_codecs.o cram/cram_codecs.c gcc -g -Wall -O2 -I. -c -o cram/cram_decode.o cram/cram_decode.c gcc -g -Wall -O2 -I. -c -o cram/cram_encode.o cram/cram_encode.c gcc -g -Wall -O2 -I. -c -o cram/cram_external.o cram/cram_external.c gcc -g -Wall -O2 -I. -c -o cram/cram_index.o cram/cram_index.c gcc -g -Wall -O2 -I. -c -o cram/cram_io.o cram/cram_io.c gcc -g -Wall -O2 -I. -c -o cram/cram_samtools.o cram/cram_samtools.c gcc -g -Wall -O2 -I. -c -o cram/cram_stats.o cram/cram_stats.c gcc -g -Wall -O2 -I. -c -o cram/files.o cram/files.c gcc -g -Wall -O2 -I. -c -o cram/mFILE.o cram/mFILE.c gcc -g -Wall -O2 -I. -c -o cram/open_trace_file.o cram/open_trace_file.c gcc -g -Wall -O2 -I. -c -o cram/pooled_alloc.o cram/pooled_alloc.c gcc -g -Wall -O2 -I. -c -o cram/rANS_static.o cram/rANS_static.c cram/cram_io.c: In function 'cram_populate_ref': cram/cram_io.c:2095:9: warning: 'strncpy' specified bound 4096 equals destination size [-Wstringop-truncation] strncpy(path, path2, PATH_MAX); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -g -Wall -O2 -I. -c -o cram/sam_header.o cram/sam_header.c In function 'full_path', inlined from 'cram_write_SAM_hdr' at cram/cram_io.c:3823:17: cram/cram_io.c:3748:13: warning: 'strncpy' specified bound 4096 equals destination size [-Wstringop-truncation] strncpy(out, in, PATH_MAX); ^~~~~~~~~~~~~~~~~~~~~~~~~~ cram/cram_io.c:3740:9: warning: 'strncpy' specified bound 4096 equals destination size [-Wstringop-truncation] strncpy(out, in, PATH_MAX); ^~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -g -Wall -O2 -I. -c -o cram/string_alloc.o cram/string_alloc.c gcc -g -Wall -O2 -I. -c -o hts.o hts.c ar -rc libhts.a kfunc.o knetfile.o kstring.o bcf_sr_sort.o bgzf.o errmod.o faidx.o hfile.o hfile_net.o hts.o hts_os.o md5.o multipart.o probaln.o realn.o regidx.o sam.o synced_bcf_reader.o vcf_sweep.o tbx.o textutils.o thread_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_samtools.o cram/cram_stats.o cram/files.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/rANS_static.o cram/sam_header.o cram/string_alloc.o ranlib libhts.a make[1]: Leaving directory '/builddir/build/BUILD/bedtools2-2.30.0/src/utils/htslib' - Building main bedtools binary. done. + cd docs + make clean html rm -rf _build/* sphinx-build -b html -d _build/doctrees . _build/html Running Sphinx v1.7.6 WARNING: extension 'matplotlib.sphinxext.plot_directive' returned an unsupported object from its setup() function; 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The HTML pages are in _build/html. + cd .. + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.lj1dtp + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64 ++ dirname /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64 + cd bedtools2-2.30.0 + rm -rf /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64 + mkdir -p /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64/usr/bin + install -m 0755 bin/annotateBed bin/bamToBed bin/bamToFastq bin/bed12ToBed6 bin/bedToBam bin/bedToIgv bin/bedpeToBam bin/bedtools bin/closestBed bin/clusterBed bin/complementBed bin/coverageBed bin/expandCols bin/fastaFromBed bin/flankBed bin/genomeCoverageBed bin/getOverlap bin/groupBy bin/intersectBed bin/linksBed bin/mapBed bin/maskFastaFromBed bin/mergeBed bin/multiBamCov bin/multiIntersectBed bin/nucBed bin/pairToBed bin/pairToPair bin/randomBed bin/shiftBed bin/shuffleBed bin/slopBed bin/sortBed bin/subtractBed bin/tagBam bin/unionBedGraphs bin/windowBed bin/windowMaker /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64/usr/bin + mkdir -p /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64/usr/share/BEDTools + cp -a genomes/ /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64/usr/share/BEDTools + cp -a data/ /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64/usr/share/BEDTools + find /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64/usr/share/BEDTools -type f -exec chmod 0644 '{}' ';' + /usr/lib/rpm/find-debuginfo.sh -j2 --strict-build-id -m -i --build-id-seed 2.30.0-3.el8 --unique-debug-suffix -2.30.0-3.el8.x86_64 --unique-debug-src-base BEDTools-2.30.0-3.el8.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/bedtools2-2.30.0 extracting debug info from /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64/usr/bin/bedtools /usr/lib/rpm/sepdebugcrcfix: Updated 1 CRC32s, 0 CRC32s did match. 4941 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig /sbin/ldconfig: Warning: ignoring configuration file that cannot be opened: /etc/ld.so.conf: No such file or directory + /usr/lib/rpm/brp-compress + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/brp-python-bytecompile '' 1 + /usr/lib/rpm/brp-python-hardlink + PYTHON3=/usr/bin/python3.6 + /usr/lib/rpm/redhat/brp-mangle-shebangs *** WARNING: ./usr/src/debug/BEDTools-2.30.0-3.el8.x86_64/src/utils/BamTools/include/BamAlignment.hpp is executable but has no shebang, removing executable bit Processing files: BEDTools-2.30.0-3.el8.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.OZ73Lm + umask 022 + cd /builddir/build/BUILD + cd bedtools2-2.30.0 + DOCDIR=/builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64/usr/share/doc/BEDTools + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64/usr/share/doc/BEDTools + cp -pr README.md /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64/usr/share/doc/BEDTools + cp -pr LICENSE /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64/usr/share/doc/BEDTools + cp -pr docs/ /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64/usr/share/doc/BEDTools + exit 0 Provides: BEDTools = 2.30.0-3.el8 BEDTools(x86-64) = 2.30.0-3.el8 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /bin/sh libbz2.so.1()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libc.so.6(GLIBC_2.8)(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) liblzma.so.5()(64bit) liblzma.so.5(XZ_5.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.23)(64bit) libpthread.so.0()(64bit) libpthread.so.0(GLIBC_2.2.5)(64bit) libpthread.so.0(GLIBC_2.3.2)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.8)(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_3.4.9)(64bit) libz.so.1()(64bit) libz.so.1(ZLIB_1.2.0)(64bit) rtld(GNU_HASH) Processing files: BEDTools-debugsource-2.30.0-3.el8.x86_64 Provides: BEDTools-debugsource = 2.30.0-3.el8 BEDTools-debugsource(x86-64) = 2.30.0-3.el8 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: BEDTools-debuginfo-2.30.0-3.el8.x86_64 Provides: BEDTools-debuginfo = 2.30.0-3.el8 BEDTools-debuginfo(x86-64) = 2.30.0-3.el8 debuginfo(build-id) = cc5e48c0acf479c0fc8dfe11b2be58b6928b55f6 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: BEDTools-debugsource(x86-64) = 2.30.0-3.el8 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64 Wrote: /builddir/build/RPMS/BEDTools-2.30.0-3.el8.x86_64.rpm Wrote: /builddir/build/RPMS/BEDTools-debugsource-2.30.0-3.el8.x86_64.rpm Wrote: /builddir/build/RPMS/BEDTools-debuginfo-2.30.0-3.el8.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.L2i5Gu + umask 022 + cd /builddir/build/BUILD + cd bedtools2-2.30.0 + rm -rf /builddir/build/BUILDROOT/BEDTools-2.30.0-3.el8.x86_64 + exit 0 Finish: rpmbuild BEDTools-2.30.0-3.el8.src.rpm Finish: build phase for BEDTools-2.30.0-3.el8.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/rhel+epel-8-x86_64-1672348713.251555/root/var/log/dnf.rpm.log /var/lib/mock/rhel+epel-8-x86_64-1672348713.251555/root/var/log/dnf.librepo.log /var/lib/mock/rhel+epel-8-x86_64-1672348713.251555/root/var/log/dnf.log INFO: Done(/var/lib/copr-rpmbuild/results/BEDTools-2.30.0-3.el8.src.rpm) Config(child) 2 minutes 1 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot Finish: run Running RPMResults tool