Warning: Permanently added '34.204.173.195' (ED25519) to the list of known hosts. Running: /usr/bin/copr-rpmbuild --verbose --drop-resultdir --build-id 5187320 --chroot fedora-rawhide-x86_64 --detached Version: 0.62 PID: 25620 Logging PID: 25621 Task: {'appstream': False, 'background': True, 'build_id': 5187320, 'buildroot_pkgs': [], 'chroot': 'fedora-rawhide-x86_64', 'enable_net': False, 'fedora_review': False, 'git_hash': '8fbc1d633396b5384af19025a2f015cdd5774096', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/jakub/gcc-13-test/wise2', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'wise2', 'package_version': '2.4.1-16', 'project_dirname': 'gcc-13-test', 'project_name': 'gcc-13-test', 'project_owner': 'jakub', 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/jakub/gcc-13-test/fedora-rawhide-x86_64/', 'id': 'copr_base', 'name': 'Copr repository'}, {'baseurl': 'https://jakub.fedorapeople.org/fedora-gcc13-$arch/', 'id': 'https_jakub_fedorapeople_org_fedora_gcc13_arch', 'name': 'Additional repo https_jakub_fedorapeople_org_fedora_gcc13_arch'}], 'sandbox': 'jakub/gcc-13-test--jakub', 'source_json': {}, 'source_type': None, 'submitter': 'jakub', 'tags': [], 'task_id': '5187320-fedora-rawhide-x86_64', 'timeout': 115200, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/jakub/gcc-13-test/wise2 /var/lib/copr-rpmbuild/workspace/workdir-5g2jp03c/wise2 --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/jakub/gcc-13-test/wise2', '/var/lib/copr-rpmbuild/workspace/workdir-5g2jp03c/wise2', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-5g2jp03c/wise2'... Running: git checkout 8fbc1d633396b5384af19025a2f015cdd5774096 cmd: ['git', 'checkout', '8fbc1d633396b5384af19025a2f015cdd5774096'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-5g2jp03c/wise2 rc: 0 stdout: stderr: Note: switching to '8fbc1d633396b5384af19025a2f015cdd5774096'. 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 8fbc1d6 automatic import of wise2 Running: copr-distgit-client sources /usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated cmd: ['copr-distgit-client', 'sources'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-5g2jp03c/wise2 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 wise2.4.1.tar.gz INFO: Calling: curl -H Pragma: -o wise2.4.1.tar.gz --location --remote-time --show-error --fail https://copr-dist-git.fedorainfracloud.org/repo/pkgs/jakub/gcc-13-test/wise2/wise2.4.1.tar.gz/md5/d70c404c1dc40ceef7718757b11bdaa0/wise2.4.1.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 3119k 100 3119k 0 0 17.3M 0 --:--:-- --:--:-- --:--:-- 17.4M INFO: Reading stdout from command: md5sum wise2.4.1.tar.gz Running (timeout=115200): unbuffer mock --buildsrpm --spec /var/lib/copr-rpmbuild/workspace/workdir-5g2jp03c/wise2/wise2.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-5g2jp03c/wise2 --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1672387198.399289 -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(bootstrap): init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish(bootstrap): init plugins Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/var/lib/copr-rpmbuild/workspace/workdir-5g2jp03c/wise2/wise2.spec) Config(fedora-rawhide-x86_64) Start: clean chroot Finish: clean chroot Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-x86_64-bootstrap-1672387198.399289/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata INFO: enabled HW Info plugin Mock Version: 3.5 INFO: Mock Version: 3.5 Start(bootstrap): 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 165 MB/s | 45 MB 00:00 Additional repo https_jakub_fedorapeople_org_fe 513 kB/s | 92 kB 00:00 fedora 44 MB/s | 65 MB 00:01 Dependencies resolved. ========================================================================================================================= Package Arch Version Repository Size ========================================================================================================================= Installing: dnf noarch 4.14.0-1.fc38 fedora 480 k dnf-plugins-core noarch 4.3.1-1.fc38 fedora 34 k Installing dependencies: alternatives x86_64 1.21-1.fc38 copr_base 39 k audit-libs x86_64 3.0.9-2.fc38 fedora 116 k basesystem noarch 11-14.fc37 fedora 7.0 k bash x86_64 5.2.9-3.fc38 copr_base 1.8 M bzip2-libs x86_64 1.0.8-12.fc38 copr_base 42 k ca-certificates noarch 2022.2.54-5.fc37 fedora 829 k coreutils x86_64 9.1-8.fc38 copr_base 1.1 M coreutils-common x86_64 9.1-8.fc38 copr_base 2.0 M crypto-policies noarch 20221215-1.gita4c31a3.fc38 fedora 90 k curl x86_64 7.87.0-1.fc38 copr_base 346 k cyrus-sasl-lib x86_64 2.1.28-8.fc38 copr_base 793 k dbus-libs x86_64 1:1.14.4-1.fc38 copr_base 156 k dnf-data noarch 4.14.0-1.fc38 fedora 43 k elfutils-default-yama-scope noarch 0.188-3.fc38 copr_base 16 k elfutils-libelf x86_64 0.188-3.fc38 copr_base 196 k elfutils-libs x86_64 0.188-3.fc38 copr_base 257 k expat x86_64 2.5.0-1.fc38 copr_base 111 k fedora-gpg-keys noarch 38-0.3 fedora 125 k fedora-release noarch 38-0.6 fedora 11 k fedora-release-common noarch 38-0.6 fedora 21 k fedora-release-identity-basic noarch 38-0.6 fedora 11 k fedora-repos noarch 38-0.3 fedora 10 k fedora-repos-rawhide noarch 38-0.3 fedora 9.7 k file-libs x86_64 5.42-4.fc38 copr_base 676 k filesystem x86_64 3.18-2.fc37 fedora 1.1 M findutils x86_64 1:4.9.0-2.fc38 copr_base 483 k gawk x86_64 5.1.1-4.fc38 copr_base 1.0 M gdbm-libs x86_64 1:1.23-2.fc38 copr_base 56 k glib2 x86_64 2.74.1-2.fc38 copr_base 2.7 M glibc x86_64 2.36.9000-19.fc38 fedora 2.1 M glibc-common x86_64 2.36.9000-19.fc38 fedora 309 k glibc-minimal-langpack x86_64 2.36.9000-19.fc38 fedora 30 k gmp x86_64 1:6.2.1-3.fc38 copr_base 315 k gnupg2 x86_64 2.3.8-1.fc38 copr_base 2.5 M gnutls x86_64 3.7.8-9.fc38 copr_base 1.1 M gpgme x86_64 1.17.1-3.fc38 copr_base 210 k grep x86_64 3.8-1.fc38 copr_base 282 k ima-evm-utils x86_64 1.4-6.fc38 copr_base 63 k json-c x86_64 0.16-3.fc38 copr_base 42 k keyutils-libs x86_64 1.6.1-5.fc38 copr_base 32 k krb5-libs x86_64 1.20.1-3.fc38 copr_base 719 k libacl x86_64 2.3.1-4.fc38 copr_base 24 k libarchive x86_64 3.6.1-3.fc38 copr_base 397 k libassuan x86_64 2.5.5-5.fc38 copr_base 68 k libattr x86_64 2.5.1-5.fc38 copr_base 18 k libb2 x86_64 0.98.1-7.fc38 copr_base 25 k libblkid x86_64 2.38.1-3.fc38 copr_base 107 k libbrotli x86_64 1.0.9-9.fc38 copr_base 316 k libcap x86_64 2.48-5.fc38 copr_base 67 k libcap-ng x86_64 0.8.3-4.fc38 copr_base 33 k libcom_err x86_64 1.46.5-3.fc38 copr_base 26 k libcomps x86_64 0.1.18-4.fc38 copr_base 77 k libcurl x86_64 7.87.0-1.fc38 copr_base 302 k libdnf x86_64 0.68.0-1.fc38 copr_base 659 k libevent x86_64 2.1.12-7.fc38 copr_base 259 k libffi x86_64 3.4.4-1.fc38 copr_base 38 k libfsverity x86_64 1.4-8.fc38 copr_base 20 k libgcc x86_64 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 93 k libgcrypt x86_64 1.10.1-6.fc38 copr_base 512 k libgomp x86_64 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 300 k libgpg-error x86_64 1.46-1.fc38 copr_base 222 k libidn2 x86_64 2.3.4-1.fc38 copr_base 154 k libksba x86_64 1.6.3-1.fc38 copr_base 158 k libmodulemd x86_64 2.14.0-4.fc38 copr_base 237 k libmount x86_64 2.38.1-3.fc38 copr_base 135 k libnghttp2 x86_64 1.51.0-1.fc38 copr_base 75 k libnsl2 x86_64 2.0.0-4.fc38 copr_base 31 k libpsl x86_64 0.21.2-1.fc38 fedora 65 k librepo x86_64 1.15.1-1.fc38 copr_base 97 k libreport-filesystem noarch 2.17.6-1.fc38 copr_base 14 k libselinux x86_64 3.5-0.rc1.1.fc38 fedora 86 k libsemanage x86_64 3.5-0.rc1.1.fc38 fedora 119 k libsepol x86_64 3.5-0.rc1.1.fc38 fedora 322 k libsigsegv x86_64 2.14-3.fc38 copr_base 27 k libsmartcols x86_64 2.38.1-3.fc38 copr_base 64 k libsolv x86_64 0.7.22-3.fc38 copr_base 406 k libssh x86_64 0.10.4-2.fc38 copr_base 210 k libssh-config noarch 0.10.4-2.fc38 copr_base 9.2 k libstdc++ x86_64 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 799 k libtasn1 x86_64 4.19.0-1.fc38 copr_base 76 k libtirpc x86_64 1.3.3-0.fc38 copr_base 94 k libunistring x86_64 1.0-2.fc38 copr_base 541 k libuuid x86_64 2.38.1-3.fc38 copr_base 28 k libverto x86_64 0.3.2-4.fc38 copr_base 21 k libxcrypt x86_64 4.4.33-5.fc38 copr_base 120 k libxml2 x86_64 2.10.3-2.fc38 copr_base 704 k libyaml x86_64 0.2.5-8.fc38 copr_base 60 k libzstd x86_64 1.5.2-3.fc37 fedora 294 k lua-libs x86_64 5.4.4-6.fc38 copr_base 133 k lz4-libs x86_64 1.9.3-5.fc38 copr_base 70 k mpdecimal x86_64 2.5.1-4.fc38 copr_base 102 k mpfr x86_64 4.1.1-2.fc38 copr_base 599 k ncurses-base noarch 6.3-5.20221126.fc38 copr_base 62 k ncurses-libs x86_64 6.3-5.20221126.fc38 copr_base 329 k nettle x86_64 3.8-2.fc38 copr_base 414 k npth x86_64 1.6-10.fc38 copr_base 25 k openldap x86_64 2.6.3-1.fc38 copr_base 254 k openssl-libs x86_64 1:3.0.5-6.fc38 copr_base 2.1 M p11-kit x86_64 0.24.1-5.fc38 copr_base 360 k p11-kit-trust x86_64 0.24.1-5.fc38 copr_base 138 k pcre2 x86_64 10.40-1.fc38.1 copr_base 236 k pcre2-syntax noarch 10.40-1.fc38.1 copr_base 143 k popt x86_64 1.19-1.fc38 copr_base 59 k publicsuffix-list-dafsa noarch 20221208-1.fc38 fedora 59 k python-pip-wheel noarch 22.3.1-1.fc38 fedora 1.4 M python-setuptools-wheel noarch 65.5.1-1.fc38 fedora 715 k python3 x86_64 3.11.1-1.fc38 copr_base 28 k python3-dateutil noarch 1:2.8.2-4.fc37 fedora 361 k python3-dbus x86_64 1.3.2-1.fc38 copr_base 147 k python3-distro noarch 1.8.0-1.fc38 fedora 49 k python3-dnf noarch 4.14.0-1.fc38 fedora 607 k python3-dnf-plugins-core noarch 4.3.1-1.fc38 fedora 277 k python3-gpg x86_64 1.17.1-3.fc38 copr_base 282 k python3-hawkey x86_64 0.68.0-1.fc38 copr_base 110 k python3-libcomps x86_64 0.1.18-4.fc38 copr_base 48 k python3-libdnf x86_64 0.68.0-1.fc38 copr_base 820 k python3-libs x86_64 3.11.1-1.fc38 copr_base 9.2 M python3-rpm x86_64 4.18.0-8.fc38 copr_base 94 k python3-six noarch 1.16.0-8.fc37 fedora 42 k readline x86_64 8.2-2.fc38 copr_base 212 k rpm x86_64 4.18.0-8.fc38 copr_base 541 k rpm-build-libs x86_64 4.18.0-8.fc38 copr_base 94 k rpm-libs x86_64 4.18.0-8.fc38 copr_base 310 k rpm-sequoia x86_64 1.2.0-1.fc38 copr_base 830 k rpm-sign-libs x86_64 4.18.0-8.fc38 copr_base 27 k sed x86_64 4.8-11.fc38 copr_base 297 k setup noarch 2.14.3-1.fc38 fedora 152 k shadow-utils x86_64 2:4.13-3.fc38 copr_base 1.2 M sqlite-libs x86_64 3.40.0-1.fc38 copr_base 662 k systemd-libs x86_64 252.4-598.fc38 fedora 632 k tpm2-tss x86_64 4.0.0-0.1.rc2.fc38 copr_base 705 k tzdata noarch 2022g-1.fc38 copr_base 432 k xz-libs x86_64 5.2.9-1.fc38 fedora 93 k zchunk-libs x86_64 1.2.3-1.fc38 fedora 51 k zlib x86_64 1.2.13-1.fc38 fedora 94 k Transaction Summary ========================================================================================================================= Install 137 Packages Total download size: 56 M Installed size: 199 M Downloading Packages: (1/137): alternatives-1.21-1.fc38.x86_64.rpm 663 kB/s | 39 kB 00:00 (2/137): bzip2-libs-1.0.8-12.fc38.x86_64.rpm 710 kB/s | 42 kB 00:00 (3/137): coreutils-9.1-8.fc38.x86_64.rpm 180 MB/s | 1.1 MB 00:00 (4/137): bash-5.2.9-3.fc38.x86_64.rpm 26 MB/s | 1.8 MB 00:00 (5/137): coreutils-common-9.1-8.fc38.x86_64.rpm 141 MB/s | 2.0 MB 00:00 (6/137): curl-7.87.0-1.fc38.x86_64.rpm 50 MB/s | 346 kB 00:00 (7/137): cyrus-sasl-lib-2.1.28-8.fc38.x86_64.rp 139 MB/s | 793 kB 00:00 (8/137): dbus-libs-1.14.4-1.fc38.x86_64.rpm 81 MB/s | 156 kB 00:00 (9/137): elfutils-default-yama-scope-0.188-3.fc 8.0 MB/s | 16 kB 00:00 (10/137): elfutils-libelf-0.188-3.fc38.x86_64.r 123 MB/s | 196 kB 00:00 (11/137): elfutils-libs-0.188-3.fc38.x86_64.rpm 99 MB/s | 257 kB 00:00 (12/137): expat-2.5.0-1.fc38.x86_64.rpm 26 MB/s | 111 kB 00:00 (13/137): file-libs-5.42-4.fc38.x86_64.rpm 149 MB/s | 676 kB 00:00 (14/137): findutils-4.9.0-2.fc38.x86_64.rpm 163 MB/s | 483 kB 00:00 (15/137): gawk-5.1.1-4.fc38.x86_64.rpm 240 MB/s | 1.0 MB 00:00 (16/137): gdbm-libs-1.23-2.fc38.x86_64.rpm 7.5 MB/s | 56 kB 00:00 (17/137): glib2-2.74.1-2.fc38.x86_64.rpm 228 MB/s | 2.7 MB 00:00 (18/137): gmp-6.2.1-3.fc38.x86_64.rpm 34 MB/s | 315 kB 00:00 (19/137): gnupg2-2.3.8-1.fc38.x86_64.rpm 199 MB/s | 2.5 MB 00:00 (20/137): gnutls-3.7.8-9.fc38.x86_64.rpm 141 MB/s | 1.1 MB 00:00 (21/137): gpgme-1.17.1-3.fc38.x86_64.rpm 40 MB/s | 210 kB 00:00 (22/137): grep-3.8-1.fc38.x86_64.rpm 130 MB/s | 282 kB 00:00 (23/137): ima-evm-utils-1.4-6.fc38.x86_64.rpm 27 MB/s | 63 kB 00:00 (24/137): json-c-0.16-3.fc38.x86_64.rpm 16 MB/s | 42 kB 00:00 (25/137): keyutils-libs-1.6.1-5.fc38.x86_64.rpm 31 MB/s | 32 kB 00:00 (26/137): krb5-libs-1.20.1-3.fc38.x86_64.rpm 198 MB/s | 719 kB 00:00 (27/137): libacl-2.3.1-4.fc38.x86_64.rpm 6.1 MB/s | 24 kB 00:00 (28/137): libarchive-3.6.1-3.fc38.x86_64.rpm 140 MB/s | 397 kB 00:00 (29/137): libassuan-2.5.5-5.fc38.x86_64.rpm 46 MB/s | 68 kB 00:00 (30/137): libattr-2.5.1-5.fc38.x86_64.rpm 9.5 MB/s | 18 kB 00:00 (31/137): libb2-0.98.1-7.fc38.x86_64.rpm 15 MB/s | 25 kB 00:00 (32/137): libblkid-2.38.1-3.fc38.x86_64.rpm 68 MB/s | 107 kB 00:00 (33/137): libbrotli-1.0.9-9.fc38.x86_64.rpm 109 MB/s | 316 kB 00:00 (34/137): libcap-2.48-5.fc38.x86_64.rpm 24 MB/s | 67 kB 00:00 (35/137): libcap-ng-0.8.3-4.fc38.x86_64.rpm 12 MB/s | 33 kB 00:00 (36/137): libcom_err-1.46.5-3.fc38.x86_64.rpm 25 MB/s | 26 kB 00:00 (37/137): libcomps-0.1.18-4.fc38.x86_64.rpm 33 MB/s | 77 kB 00:00 (38/137): libcurl-7.87.0-1.fc38.x86_64.rpm 118 MB/s | 302 kB 00:00 (39/137): libdnf-0.68.0-1.fc38.x86_64.rpm 211 MB/s | 659 kB 00:00 (40/137): libevent-2.1.12-7.fc38.x86_64.rpm 122 MB/s | 259 kB 00:00 (41/137): libffi-3.4.4-1.fc38.x86_64.rpm 17 MB/s | 38 kB 00:00 (42/137): 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file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-38-primary (0xEB10B464) is already installed fedora 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0x5323552A: Userid : "Fedora (37) " Fingerprint: ACB5 EE4E 831C 74BB 7C16 8D27 F55A D3FB 5323 552A From : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-37-primary Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.18-2.fc37.x86_64 1/1 Preparing : 1/1 Installing : libgcc-13.0.0-0.4.fc38.x86_64 1/137 Running scriptlet: libgcc-13.0.0-0.4.fc38.x86_64 1/137 Installing : crypto-policies-20221215-1.gita4c31a3.fc38.noarc 2/137 Running scriptlet: crypto-policies-20221215-1.gita4c31a3.fc38.noarc 2/137 Installing : tzdata-2022g-1.fc38.noarch 3/137 Installing : fedora-release-identity-basic-38-0.6.noarch 4/137 Installing : python-setuptools-wheel-65.5.1-1.fc38.noarch 5/137 Installing : publicsuffix-list-dafsa-20221208-1.fc38.noarch 6/137 Installing : fedora-gpg-keys-38-0.3.noarch 7/137 Installing : fedora-release-38-0.6.noarch 8/137 Installing : fedora-release-common-38-0.6.noarch 9/137 Installing : fedora-repos-rawhide-38-0.3.noarch 10/137 Installing : fedora-repos-38-0.3.noarch 11/137 Installing : setup-2.14.3-1.fc38.noarch 12/137 Running scriptlet: setup-2.14.3-1.fc38.noarch 12/137 Installing : filesystem-3.18-2.fc37.x86_64 13/137 Installing : 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Installing : dnf-4.14.0-1.fc38.noarch 136/137 Running scriptlet: dnf-4.14.0-1.fc38.noarch 136/137 Running scriptlet: rpm-4.18.0-8.fc38.x86_64 137/137 Installing : rpm-4.18.0-8.fc38.x86_64 137/137 Running scriptlet: filesystem-3.18-2.fc37.x86_64 137/137 Running scriptlet: ca-certificates-2022.2.54-5.fc37.noarch 137/137 Running scriptlet: rpm-4.18.0-8.fc38.x86_64 137/137 Verifying : alternatives-1.21-1.fc38.x86_64 1/137 Verifying : bash-5.2.9-3.fc38.x86_64 2/137 Verifying : bzip2-libs-1.0.8-12.fc38.x86_64 3/137 Verifying : coreutils-9.1-8.fc38.x86_64 4/137 Verifying : coreutils-common-9.1-8.fc38.x86_64 5/137 Verifying : curl-7.87.0-1.fc38.x86_64 6/137 Verifying : cyrus-sasl-lib-2.1.28-8.fc38.x86_64 7/137 Verifying : dbus-libs-1:1.14.4-1.fc38.x86_64 8/137 Verifying : elfutils-default-yama-scope-0.188-3.fc38.noarch 9/137 Verifying : elfutils-libelf-0.188-3.fc38.x86_64 10/137 Verifying : elfutils-libs-0.188-3.fc38.x86_64 11/137 Verifying : expat-2.5.0-1.fc38.x86_64 12/137 Verifying : file-libs-5.42-4.fc38.x86_64 13/137 Verifying : findutils-1:4.9.0-2.fc38.x86_64 14/137 Verifying : gawk-5.1.1-4.fc38.x86_64 15/137 Verifying : gdbm-libs-1:1.23-2.fc38.x86_64 16/137 Verifying : glib2-2.74.1-2.fc38.x86_64 17/137 Verifying : gmp-1:6.2.1-3.fc38.x86_64 18/137 Verifying : gnupg2-2.3.8-1.fc38.x86_64 19/137 Verifying : gnutls-3.7.8-9.fc38.x86_64 20/137 Verifying : gpgme-1.17.1-3.fc38.x86_64 21/137 Verifying : grep-3.8-1.fc38.x86_64 22/137 Verifying : ima-evm-utils-1.4-6.fc38.x86_64 23/137 Verifying : json-c-0.16-3.fc38.x86_64 24/137 Verifying : keyutils-libs-1.6.1-5.fc38.x86_64 25/137 Verifying : krb5-libs-1.20.1-3.fc38.x86_64 26/137 Verifying : libacl-2.3.1-4.fc38.x86_64 27/137 Verifying : libarchive-3.6.1-3.fc38.x86_64 28/137 Verifying : libassuan-2.5.5-5.fc38.x86_64 29/137 Verifying : libattr-2.5.1-5.fc38.x86_64 30/137 Verifying : libb2-0.98.1-7.fc38.x86_64 31/137 Verifying : libblkid-2.38.1-3.fc38.x86_64 32/137 Verifying : libbrotli-1.0.9-9.fc38.x86_64 33/137 Verifying : libcap-2.48-5.fc38.x86_64 34/137 Verifying : libcap-ng-0.8.3-4.fc38.x86_64 35/137 Verifying : libcom_err-1.46.5-3.fc38.x86_64 36/137 Verifying : libcomps-0.1.18-4.fc38.x86_64 37/137 Verifying : libcurl-7.87.0-1.fc38.x86_64 38/137 Verifying : libdnf-0.68.0-1.fc38.x86_64 39/137 Verifying : libevent-2.1.12-7.fc38.x86_64 40/137 Verifying : libffi-3.4.4-1.fc38.x86_64 41/137 Verifying : libfsverity-1.4-8.fc38.x86_64 42/137 Verifying : libgcrypt-1.10.1-6.fc38.x86_64 43/137 Verifying : libgpg-error-1.46-1.fc38.x86_64 44/137 Verifying : libidn2-2.3.4-1.fc38.x86_64 45/137 Verifying : libksba-1.6.3-1.fc38.x86_64 46/137 Verifying : libmodulemd-2.14.0-4.fc38.x86_64 47/137 Verifying : libmount-2.38.1-3.fc38.x86_64 48/137 Verifying : libnghttp2-1.51.0-1.fc38.x86_64 49/137 Verifying : libnsl2-2.0.0-4.fc38.x86_64 50/137 Verifying : librepo-1.15.1-1.fc38.x86_64 51/137 Verifying : libreport-filesystem-2.17.6-1.fc38.noarch 52/137 Verifying : libsigsegv-2.14-3.fc38.x86_64 53/137 Verifying : libsmartcols-2.38.1-3.fc38.x86_64 54/137 Verifying : libsolv-0.7.22-3.fc38.x86_64 55/137 Verifying : libssh-0.10.4-2.fc38.x86_64 56/137 Verifying : libssh-config-0.10.4-2.fc38.noarch 57/137 Verifying : libtasn1-4.19.0-1.fc38.x86_64 58/137 Verifying : libtirpc-1.3.3-0.fc38.x86_64 59/137 Verifying : libunistring-1.0-2.fc38.x86_64 60/137 Verifying : libuuid-2.38.1-3.fc38.x86_64 61/137 Verifying : libverto-0.3.2-4.fc38.x86_64 62/137 Verifying : libxcrypt-4.4.33-5.fc38.x86_64 63/137 Verifying : libxml2-2.10.3-2.fc38.x86_64 64/137 Verifying : libyaml-0.2.5-8.fc38.x86_64 65/137 Verifying : lua-libs-5.4.4-6.fc38.x86_64 66/137 Verifying : lz4-libs-1.9.3-5.fc38.x86_64 67/137 Verifying : mpdecimal-2.5.1-4.fc38.x86_64 68/137 Verifying : mpfr-4.1.1-2.fc38.x86_64 69/137 Verifying : ncurses-base-6.3-5.20221126.fc38.noarch 70/137 Verifying : ncurses-libs-6.3-5.20221126.fc38.x86_64 71/137 Verifying : nettle-3.8-2.fc38.x86_64 72/137 Verifying : npth-1.6-10.fc38.x86_64 73/137 Verifying : openldap-2.6.3-1.fc38.x86_64 74/137 Verifying : openssl-libs-1:3.0.5-6.fc38.x86_64 75/137 Verifying : p11-kit-0.24.1-5.fc38.x86_64 76/137 Verifying : p11-kit-trust-0.24.1-5.fc38.x86_64 77/137 Verifying : pcre2-10.40-1.fc38.1.x86_64 78/137 Verifying : pcre2-syntax-10.40-1.fc38.1.noarch 79/137 Verifying : popt-1.19-1.fc38.x86_64 80/137 Verifying : python3-3.11.1-1.fc38.x86_64 81/137 Verifying : python3-dbus-1.3.2-1.fc38.x86_64 82/137 Verifying : python3-gpg-1.17.1-3.fc38.x86_64 83/137 Verifying : python3-hawkey-0.68.0-1.fc38.x86_64 84/137 Verifying : python3-libcomps-0.1.18-4.fc38.x86_64 85/137 Verifying : python3-libdnf-0.68.0-1.fc38.x86_64 86/137 Verifying : python3-libs-3.11.1-1.fc38.x86_64 87/137 Verifying : python3-rpm-4.18.0-8.fc38.x86_64 88/137 Verifying : readline-8.2-2.fc38.x86_64 89/137 Verifying : rpm-4.18.0-8.fc38.x86_64 90/137 Verifying : rpm-build-libs-4.18.0-8.fc38.x86_64 91/137 Verifying : rpm-libs-4.18.0-8.fc38.x86_64 92/137 Verifying : rpm-sequoia-1.2.0-1.fc38.x86_64 93/137 Verifying : rpm-sign-libs-4.18.0-8.fc38.x86_64 94/137 Verifying : sed-4.8-11.fc38.x86_64 95/137 Verifying : shadow-utils-2:4.13-3.fc38.x86_64 96/137 Verifying : sqlite-libs-3.40.0-1.fc38.x86_64 97/137 Verifying : tpm2-tss-4.0.0-0.1.rc2.fc38.x86_64 98/137 Verifying : tzdata-2022g-1.fc38.noarch 99/137 Verifying : libgcc-13.0.0-0.4.fc38.x86_64 100/137 Verifying : libgomp-13.0.0-0.4.fc38.x86_64 101/137 Verifying : libstdc++-13.0.0-0.4.fc38.x86_64 102/137 Verifying : audit-libs-3.0.9-2.fc38.x86_64 103/137 Verifying : basesystem-11-14.fc37.noarch 104/137 Verifying : ca-certificates-2022.2.54-5.fc37.noarch 105/137 Verifying : crypto-policies-20221215-1.gita4c31a3.fc38.noarc 106/137 Verifying : dnf-4.14.0-1.fc38.noarch 107/137 Verifying : dnf-data-4.14.0-1.fc38.noarch 108/137 Verifying : dnf-plugins-core-4.3.1-1.fc38.noarch 109/137 Verifying : fedora-gpg-keys-38-0.3.noarch 110/137 Verifying : fedora-release-38-0.6.noarch 111/137 Verifying : fedora-release-common-38-0.6.noarch 112/137 Verifying : fedora-release-identity-basic-38-0.6.noarch 113/137 Verifying : fedora-repos-38-0.3.noarch 114/137 Verifying : fedora-repos-rawhide-38-0.3.noarch 115/137 Verifying : filesystem-3.18-2.fc37.x86_64 116/137 Verifying : glibc-2.36.9000-19.fc38.x86_64 117/137 Verifying : glibc-common-2.36.9000-19.fc38.x86_64 118/137 Verifying : glibc-minimal-langpack-2.36.9000-19.fc38.x86_64 119/137 Verifying : libpsl-0.21.2-1.fc38.x86_64 120/137 Verifying : libselinux-3.5-0.rc1.1.fc38.x86_64 121/137 Verifying : libsemanage-3.5-0.rc1.1.fc38.x86_64 122/137 Verifying : libsepol-3.5-0.rc1.1.fc38.x86_64 123/137 Verifying : libzstd-1.5.2-3.fc37.x86_64 124/137 Verifying : publicsuffix-list-dafsa-20221208-1.fc38.noarch 125/137 Verifying : python-pip-wheel-22.3.1-1.fc38.noarch 126/137 Verifying : python-setuptools-wheel-65.5.1-1.fc38.noarch 127/137 Verifying : python3-dateutil-1:2.8.2-4.fc37.noarch 128/137 Verifying : python3-distro-1.8.0-1.fc38.noarch 129/137 Verifying : python3-dnf-4.14.0-1.fc38.noarch 130/137 Verifying : python3-dnf-plugins-core-4.3.1-1.fc38.noarch 131/137 Verifying : python3-six-1.16.0-8.fc37.noarch 132/137 Verifying : setup-2.14.3-1.fc38.noarch 133/137 Verifying : systemd-libs-252.4-598.fc38.x86_64 134/137 Verifying : xz-libs-5.2.9-1.fc38.x86_64 135/137 Verifying : zchunk-libs-1.2.3-1.fc38.x86_64 136/137 Verifying : zlib-1.2.13-1.fc38.x86_64 137/137 Installed products updated. Installed: alternatives-1.21-1.fc38.x86_64 audit-libs-3.0.9-2.fc38.x86_64 basesystem-11-14.fc37.noarch bash-5.2.9-3.fc38.x86_64 bzip2-libs-1.0.8-12.fc38.x86_64 ca-certificates-2022.2.54-5.fc37.noarch coreutils-9.1-8.fc38.x86_64 coreutils-common-9.1-8.fc38.x86_64 crypto-policies-20221215-1.gita4c31a3.fc38.noarch curl-7.87.0-1.fc38.x86_64 cyrus-sasl-lib-2.1.28-8.fc38.x86_64 dbus-libs-1:1.14.4-1.fc38.x86_64 dnf-4.14.0-1.fc38.noarch dnf-data-4.14.0-1.fc38.noarch dnf-plugins-core-4.3.1-1.fc38.noarch elfutils-default-yama-scope-0.188-3.fc38.noarch elfutils-libelf-0.188-3.fc38.x86_64 elfutils-libs-0.188-3.fc38.x86_64 expat-2.5.0-1.fc38.x86_64 fedora-gpg-keys-38-0.3.noarch fedora-release-38-0.6.noarch fedora-release-common-38-0.6.noarch fedora-release-identity-basic-38-0.6.noarch fedora-repos-38-0.3.noarch fedora-repos-rawhide-38-0.3.noarch file-libs-5.42-4.fc38.x86_64 filesystem-3.18-2.fc37.x86_64 findutils-1:4.9.0-2.fc38.x86_64 gawk-5.1.1-4.fc38.x86_64 gdbm-libs-1:1.23-2.fc38.x86_64 glib2-2.74.1-2.fc38.x86_64 glibc-2.36.9000-19.fc38.x86_64 glibc-common-2.36.9000-19.fc38.x86_64 glibc-minimal-langpack-2.36.9000-19.fc38.x86_64 gmp-1:6.2.1-3.fc38.x86_64 gnupg2-2.3.8-1.fc38.x86_64 gnutls-3.7.8-9.fc38.x86_64 gpgme-1.17.1-3.fc38.x86_64 grep-3.8-1.fc38.x86_64 ima-evm-utils-1.4-6.fc38.x86_64 json-c-0.16-3.fc38.x86_64 keyutils-libs-1.6.1-5.fc38.x86_64 krb5-libs-1.20.1-3.fc38.x86_64 libacl-2.3.1-4.fc38.x86_64 libarchive-3.6.1-3.fc38.x86_64 libassuan-2.5.5-5.fc38.x86_64 libattr-2.5.1-5.fc38.x86_64 libb2-0.98.1-7.fc38.x86_64 libblkid-2.38.1-3.fc38.x86_64 libbrotli-1.0.9-9.fc38.x86_64 libcap-2.48-5.fc38.x86_64 libcap-ng-0.8.3-4.fc38.x86_64 libcom_err-1.46.5-3.fc38.x86_64 libcomps-0.1.18-4.fc38.x86_64 libcurl-7.87.0-1.fc38.x86_64 libdnf-0.68.0-1.fc38.x86_64 libevent-2.1.12-7.fc38.x86_64 libffi-3.4.4-1.fc38.x86_64 libfsverity-1.4-8.fc38.x86_64 libgcc-13.0.0-0.4.fc38.x86_64 libgcrypt-1.10.1-6.fc38.x86_64 libgomp-13.0.0-0.4.fc38.x86_64 libgpg-error-1.46-1.fc38.x86_64 libidn2-2.3.4-1.fc38.x86_64 libksba-1.6.3-1.fc38.x86_64 libmodulemd-2.14.0-4.fc38.x86_64 libmount-2.38.1-3.fc38.x86_64 libnghttp2-1.51.0-1.fc38.x86_64 libnsl2-2.0.0-4.fc38.x86_64 libpsl-0.21.2-1.fc38.x86_64 librepo-1.15.1-1.fc38.x86_64 libreport-filesystem-2.17.6-1.fc38.noarch libselinux-3.5-0.rc1.1.fc38.x86_64 libsemanage-3.5-0.rc1.1.fc38.x86_64 libsepol-3.5-0.rc1.1.fc38.x86_64 libsigsegv-2.14-3.fc38.x86_64 libsmartcols-2.38.1-3.fc38.x86_64 libsolv-0.7.22-3.fc38.x86_64 libssh-0.10.4-2.fc38.x86_64 libssh-config-0.10.4-2.fc38.noarch libstdc++-13.0.0-0.4.fc38.x86_64 libtasn1-4.19.0-1.fc38.x86_64 libtirpc-1.3.3-0.fc38.x86_64 libunistring-1.0-2.fc38.x86_64 libuuid-2.38.1-3.fc38.x86_64 libverto-0.3.2-4.fc38.x86_64 libxcrypt-4.4.33-5.fc38.x86_64 libxml2-2.10.3-2.fc38.x86_64 libyaml-0.2.5-8.fc38.x86_64 libzstd-1.5.2-3.fc37.x86_64 lua-libs-5.4.4-6.fc38.x86_64 lz4-libs-1.9.3-5.fc38.x86_64 mpdecimal-2.5.1-4.fc38.x86_64 mpfr-4.1.1-2.fc38.x86_64 ncurses-base-6.3-5.20221126.fc38.noarch ncurses-libs-6.3-5.20221126.fc38.x86_64 nettle-3.8-2.fc38.x86_64 npth-1.6-10.fc38.x86_64 openldap-2.6.3-1.fc38.x86_64 openssl-libs-1:3.0.5-6.fc38.x86_64 p11-kit-0.24.1-5.fc38.x86_64 p11-kit-trust-0.24.1-5.fc38.x86_64 pcre2-10.40-1.fc38.1.x86_64 pcre2-syntax-10.40-1.fc38.1.noarch popt-1.19-1.fc38.x86_64 publicsuffix-list-dafsa-20221208-1.fc38.noarch python-pip-wheel-22.3.1-1.fc38.noarch python-setuptools-wheel-65.5.1-1.fc38.noarch python3-3.11.1-1.fc38.x86_64 python3-dateutil-1:2.8.2-4.fc37.noarch python3-dbus-1.3.2-1.fc38.x86_64 python3-distro-1.8.0-1.fc38.noarch python3-dnf-4.14.0-1.fc38.noarch python3-dnf-plugins-core-4.3.1-1.fc38.noarch python3-gpg-1.17.1-3.fc38.x86_64 python3-hawkey-0.68.0-1.fc38.x86_64 python3-libcomps-0.1.18-4.fc38.x86_64 python3-libdnf-0.68.0-1.fc38.x86_64 python3-libs-3.11.1-1.fc38.x86_64 python3-rpm-4.18.0-8.fc38.x86_64 python3-six-1.16.0-8.fc37.noarch readline-8.2-2.fc38.x86_64 rpm-4.18.0-8.fc38.x86_64 rpm-build-libs-4.18.0-8.fc38.x86_64 rpm-libs-4.18.0-8.fc38.x86_64 rpm-sequoia-1.2.0-1.fc38.x86_64 rpm-sign-libs-4.18.0-8.fc38.x86_64 sed-4.8-11.fc38.x86_64 setup-2.14.3-1.fc38.noarch shadow-utils-2:4.13-3.fc38.x86_64 sqlite-libs-3.40.0-1.fc38.x86_64 systemd-libs-252.4-598.fc38.x86_64 tpm2-tss-4.0.0-0.1.rc2.fc38.x86_64 tzdata-2022g-1.fc38.noarch xz-libs-5.2.9-1.fc38.x86_64 zchunk-libs-1.2.3-1.fc38.x86_64 zlib-1.2.13-1.fc38.x86_64 Complete! Finish(bootstrap): dnf install Start(bootstrap): creating root cache Finish(bootstrap): creating root cache Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-x86_64-1672387198.399289/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 Copr repository 119 MB/s | 45 MB 00:00 Additional repo https_jakub_fedorapeople_org_fe 168 kB/s | 92 kB 00:00 fedora 32 MB/s | 65 MB 00:02 Last metadata expiration check: 0:00:01 ago on Fri Dec 30 08:00:50 2022. Dependencies resolved. ========================================================================================================================= Package Arch Version Repository Size ========================================================================================================================= Installing group/module packages: bash x86_64 5.2.9-3.fc38 copr_base 1.8 M bzip2 x86_64 1.0.8-12.fc38 copr_base 53 k coreutils x86_64 9.1-8.fc38 copr_base 1.1 M cpio x86_64 2.13-13.fc38 copr_base 271 k diffutils x86_64 3.8-3.fc38 copr_base 371 k fedora-release-common noarch 38-0.6 fedora 21 k findutils x86_64 1:4.9.0-2.fc38 copr_base 483 k gawk x86_64 5.1.1-4.fc38 copr_base 1.0 M glibc-minimal-langpack x86_64 2.36.9000-19.fc38 fedora 30 k grep x86_64 3.8-1.fc38 copr_base 282 k gzip x86_64 1.12-2.fc38 copr_base 159 k info x86_64 7.0.1-1.fc38 copr_base 182 k patch x86_64 2.7.6-17.fc38 copr_base 125 k redhat-rpm-config noarch 236-1.fc38 fedora 81 k rpm-build x86_64 4.18.0-8.fc38 copr_base 70 k sed x86_64 4.8-11.fc38 copr_base 297 k shadow-utils x86_64 2:4.13-3.fc38 copr_base 1.2 M tar x86_64 2:1.34-5.fc38 copr_base 879 k unzip x86_64 6.0-58.fc38 copr_base 184 k util-linux x86_64 2.38.1-3.fc38 copr_base 2.3 M which x86_64 2.21-36.fc38 copr_base 42 k xz x86_64 5.2.9-1.fc38 fedora 306 k Installing dependencies: alternatives x86_64 1.21-1.fc38 copr_base 39 k ansible-srpm-macros noarch 1-8.1.fc38 fedora 8.6 k audit-libs x86_64 3.0.9-2.fc38 fedora 116 k authselect x86_64 1.4.2-1.fc38 copr_base 140 k authselect-libs x86_64 1.4.2-1.fc38 copr_base 237 k basesystem noarch 11-14.fc37 fedora 7.0 k binutils x86_64 2.39-6.fc38 copr_base 5.4 M binutils-gold x86_64 2.39-6.fc38 copr_base 787 k bzip2-libs x86_64 1.0.8-12.fc38 copr_base 42 k ca-certificates noarch 2022.2.54-5.fc37 fedora 829 k coreutils-common x86_64 9.1-8.fc38 copr_base 2.0 M cracklib x86_64 2.9.7-30.fc38 copr_base 82 k crypto-policies noarch 20221215-1.gita4c31a3.fc38 fedora 90 k curl x86_64 7.87.0-1.fc38 copr_base 346 k cyrus-sasl-lib x86_64 2.1.28-8.fc38 copr_base 793 k debugedit x86_64 5.0-5.fc37 fedora 77 k dwz x86_64 0.15-1.fc38 copr_base 137 k ed x86_64 1.18-2.fc38 copr_base 79 k efi-srpm-macros noarch 5-6.fc37 fedora 22 k elfutils x86_64 0.188-3.fc38 copr_base 524 k elfutils-debuginfod-client x86_64 0.188-3.fc38 copr_base 40 k elfutils-default-yama-scope noarch 0.188-3.fc38 copr_base 16 k elfutils-libelf x86_64 0.188-3.fc38 copr_base 196 k elfutils-libs x86_64 0.188-3.fc38 copr_base 257 k fedora-gpg-keys noarch 38-0.3 fedora 125 k fedora-release noarch 38-0.6 fedora 11 k fedora-release-identity-basic noarch 38-0.6 fedora 11 k fedora-repos noarch 38-0.3 fedora 10 k fedora-repos-rawhide noarch 38-0.3 fedora 9.7 k file x86_64 5.42-4.fc38 copr_base 49 k file-libs x86_64 5.42-4.fc38 copr_base 676 k filesystem x86_64 3.18-2.fc37 fedora 1.1 M fonts-srpm-macros noarch 1:2.0.5-10.fc38 fedora 26 k fpc-srpm-macros noarch 1.3-6.fc37 fedora 7.7 k gdb-minimal x86_64 12.1-10.fc38 fedora 3.7 M gdbm-libs x86_64 1:1.23-2.fc38 copr_base 56 k ghc-srpm-macros noarch 1.5.0-7.fc37 fedora 7.8 k glibc x86_64 2.36.9000-19.fc38 fedora 2.1 M glibc-common x86_64 2.36.9000-19.fc38 fedora 309 k glibc-gconv-extra x86_64 2.36.9000-19.fc38 fedora 1.6 M gmp x86_64 1:6.2.1-3.fc38 copr_base 315 k gnat-srpm-macros noarch 4-16.fc37 fedora 8.3 k go-srpm-macros noarch 3.2.0-1.fc38 fedora 27 k jansson x86_64 2.13.1-5.fc38 copr_base 45 k kernel-srpm-macros noarch 1.0-15.fc37 fedora 9.4 k keyutils-libs x86_64 1.6.1-5.fc38 copr_base 32 k krb5-libs x86_64 1.20.1-3.fc38 copr_base 719 k libacl x86_64 2.3.1-4.fc38 copr_base 24 k libarchive x86_64 3.6.1-3.fc38 copr_base 397 k libattr x86_64 2.5.1-5.fc38 copr_base 18 k libblkid x86_64 2.38.1-3.fc38 copr_base 107 k libbrotli x86_64 1.0.9-9.fc38 copr_base 316 k libcap x86_64 2.48-5.fc38 copr_base 67 k libcap-ng x86_64 0.8.3-4.fc38 copr_base 33 k libcom_err x86_64 1.46.5-3.fc38 copr_base 26 k libcurl x86_64 7.87.0-1.fc38 copr_base 302 k libdb x86_64 5.3.28-54.fc38 copr_base 763 k libeconf x86_64 0.4.0-4.fc38 copr_base 28 k libevent x86_64 2.1.12-7.fc38 copr_base 259 k libfdisk x86_64 2.38.1-3.fc38 copr_base 160 k libffi x86_64 3.4.4-1.fc38 copr_base 38 k libgcc x86_64 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 93 k libgomp x86_64 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 300 k libidn2 x86_64 2.3.4-1.fc38 copr_base 154 k libmount x86_64 2.38.1-3.fc38 copr_base 135 k libnghttp2 x86_64 1.51.0-1.fc38 copr_base 75 k libnsl2 x86_64 2.0.0-4.fc38 copr_base 31 k libpkgconf x86_64 1.8.0-3.fc38 copr_base 36 k libpsl x86_64 0.21.2-1.fc38 fedora 65 k libpwquality x86_64 1.4.5-1.fc38 fedora 119 k libselinux x86_64 3.5-0.rc1.1.fc38 fedora 86 k libsemanage x86_64 3.5-0.rc1.1.fc38 fedora 119 k libsepol x86_64 3.5-0.rc1.1.fc38 fedora 322 k libsigsegv x86_64 2.14-3.fc38 copr_base 27 k libsmartcols x86_64 2.38.1-3.fc38 copr_base 64 k libssh x86_64 0.10.4-2.fc38 copr_base 210 k libssh-config noarch 0.10.4-2.fc38 copr_base 9.2 k libstdc++ x86_64 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 799 k libtasn1 x86_64 4.19.0-1.fc38 copr_base 76 k libtirpc x86_64 1.3.3-0.fc38 copr_base 94 k libunistring x86_64 1.0-2.fc38 copr_base 541 k libutempter x86_64 1.2.1-7.fc38 copr_base 26 k libuuid x86_64 2.38.1-3.fc38 copr_base 28 k libverto x86_64 0.3.2-4.fc38 copr_base 21 k libxcrypt x86_64 4.4.33-5.fc38 copr_base 120 k libxml2 x86_64 2.10.3-2.fc38 copr_base 704 k libzstd x86_64 1.5.2-3.fc37 fedora 294 k lua-libs x86_64 5.4.4-6.fc38 copr_base 133 k lua-srpm-macros noarch 1-7.fc37 fedora 8.8 k lz4-libs x86_64 1.9.3-5.fc38 copr_base 70 k mpfr x86_64 4.1.1-2.fc38 copr_base 599 k ncurses-base noarch 6.3-5.20221126.fc38 copr_base 62 k ncurses-libs x86_64 6.3-5.20221126.fc38 copr_base 329 k nettle x86_64 3.8-2.fc38 copr_base 414 k nim-srpm-macros noarch 3-7.fc37 fedora 8.4 k ocaml-srpm-macros noarch 7-2.fc37 fedora 13 k openblas-srpm-macros noarch 2-12.fc37 fedora 7.5 k openldap x86_64 2.6.3-1.fc38 copr_base 254 k openssl-libs x86_64 1:3.0.5-6.fc38 copr_base 2.1 M p11-kit x86_64 0.24.1-5.fc38 copr_base 360 k p11-kit-trust x86_64 0.24.1-5.fc38 copr_base 138 k package-notes-srpm-macros noarch 0.5-6.fc38 fedora 11 k pam x86_64 1.5.2-15.fc38 copr_base 521 k pam-libs x86_64 1.5.2-15.fc38 copr_base 57 k pcre2 x86_64 10.40-1.fc38.1 copr_base 236 k pcre2-syntax noarch 10.40-1.fc38.1 copr_base 143 k perl-srpm-macros noarch 1-47.fc38 fedora 8.2 k pkgconf x86_64 1.8.0-3.fc38 copr_base 42 k pkgconf-m4 noarch 1.8.0-3.fc38 copr_base 15 k pkgconf-pkg-config x86_64 1.8.0-3.fc38 copr_base 11 k popt x86_64 1.19-1.fc38 copr_base 59 k publicsuffix-list-dafsa noarch 20221208-1.fc38 fedora 59 k python-srpm-macros noarch 3.11-6.fc38 fedora 25 k qt5-srpm-macros noarch 5.15.7-1.fc38 copr_base 8.4 k readline x86_64 8.2-2.fc38 copr_base 212 k rpm x86_64 4.18.0-8.fc38 copr_base 541 k rpm-build-libs x86_64 4.18.0-8.fc38 copr_base 94 k rpm-libs x86_64 4.18.0-8.fc38 copr_base 310 k rpm-sequoia x86_64 1.2.0-1.fc38 copr_base 830 k rpmautospec-rpm-macros noarch 0.3.1-1.fc38 copr_base 9.3 k rust-srpm-macros noarch 23-1.fc38 fedora 9.4 k setup noarch 2.14.3-1.fc38 fedora 152 k sqlite-libs x86_64 3.40.0-1.fc38 copr_base 662 k systemd-libs x86_64 252.4-598.fc38 fedora 632 k tzdata noarch 2022g-1.fc38 copr_base 432 k util-linux-core x86_64 2.38.1-3.fc38 copr_base 457 k xxhash-libs x86_64 0.8.1-3.fc37 fedora 41 k xz-libs x86_64 5.2.9-1.fc38 fedora 93 k zip x86_64 3.0-35.fc38 fedora 259 k zlib x86_64 1.2.13-1.fc38 fedora 94 k zstd x86_64 1.5.2-3.fc37 fedora 447 k Installing Groups: Buildsystem building group Transaction Summary ========================================================================================================================= Install 153 Packages Total download size: 52 M Installed size: 181 M Downloading Packages: (1/153): authselect-1.4.2-1.fc38.x86_64.rpm 4.4 MB/s | 140 kB 00:00 (2/153): alternatives-1.21-1.fc38.x86_64.rpm 1.2 MB/s | 39 kB 00:00 (3/153): authselect-libs-1.4.2-1.fc38.x86_64.rp 6.9 MB/s | 237 kB 00:00 (4/153): bash-5.2.9-3.fc38.x86_64.rpm 167 MB/s | 1.8 MB 00:00 (5/153): binutils-gold-2.39-6.fc38.x86_64.rpm 76 MB/s | 787 kB 00:00 (6/153): bzip2-1.0.8-12.fc38.x86_64.rpm 11 MB/s | 53 kB 00:00 (7/153): binutils-2.39-6.fc38.x86_64.rpm 220 MB/s | 5.4 MB 00:00 (8/153): bzip2-libs-1.0.8-12.fc38.x86_64.rpm 3.8 MB/s | 42 kB 00:00 (9/153): coreutils-9.1-8.fc38.x86_64.rpm 107 MB/s | 1.1 MB 00:00 (10/153): coreutils-common-9.1-8.fc38.x86_64.rp 307 MB/s | 2.0 MB 00:00 (11/153): cpio-2.13-13.fc38.x86_64.rpm 34 MB/s | 271 kB 00:00 (12/153): cracklib-2.9.7-30.fc38.x86_64.rpm 18 MB/s | 82 kB 00:00 (13/153): curl-7.87.0-1.fc38.x86_64.rpm 163 MB/s | 346 kB 00:00 (14/153): cyrus-sasl-lib-2.1.28-8.fc38.x86_64.r 199 MB/s | 793 kB 00:00 (15/153): diffutils-3.8-3.fc38.x86_64.rpm 82 MB/s | 371 kB 00:00 (16/153): dwz-0.15-1.fc38.x86_64.rpm 56 MB/s | 137 kB 00:00 (17/153): ed-1.18-2.fc38.x86_64.rpm 65 MB/s | 79 kB 00:00 (18/153): elfutils-0.188-3.fc38.x86_64.rpm 181 MB/s | 524 kB 00:00 (19/153): elfutils-debuginfod-client-0.188-3.fc 12 MB/s | 40 kB 00:00 (20/153): elfutils-default-yama-scope-0.188-3.f 5.2 MB/s | 16 kB 00:00 (21/153): elfutils-libelf-0.188-3.fc38.x86_64.r 49 MB/s | 196 kB 00:00 (22/153): elfutils-libs-0.188-3.fc38.x86_64.rpm 57 MB/s | 257 kB 00:00 (23/153): file-5.42-4.fc38.x86_64.rpm 13 MB/s | 49 kB 00:00 (24/153): file-libs-5.42-4.fc38.x86_64.rpm 144 MB/s | 676 kB 00:00 (25/153): findutils-4.9.0-2.fc38.x86_64.rpm 104 MB/s | 483 kB 00:00 (26/153): gawk-5.1.1-4.fc38.x86_64.rpm 146 MB/s | 1.0 MB 00:00 (27/153): gdbm-libs-1.23-2.fc38.x86_64.rpm 12 MB/s | 56 kB 00:00 (28/153): gmp-6.2.1-3.fc38.x86_64.rpm 103 MB/s | 315 kB 00:00 (29/153): grep-3.8-1.fc38.x86_64.rpm 116 MB/s | 282 kB 00:00 (30/153): gzip-1.12-2.fc38.x86_64.rpm 70 MB/s | 159 kB 00:00 (31/153): info-7.0.1-1.fc38.x86_64.rpm 57 MB/s | 182 kB 00:00 (32/153): jansson-2.13.1-5.fc38.x86_64.rpm 17 MB/s | 45 kB 00:00 (33/153): keyutils-libs-1.6.1-5.fc38.x86_64.rpm 22 MB/s | 32 kB 00:00 (34/153): krb5-libs-1.20.1-3.fc38.x86_64.rpm 252 MB/s | 719 kB 00:00 (35/153): libacl-2.3.1-4.fc38.x86_64.rpm 14 MB/s | 24 kB 00:00 (36/153): libarchive-3.6.1-3.fc38.x86_64.rpm 134 MB/s | 397 kB 00:00 (37/153): libattr-2.5.1-5.fc38.x86_64.rpm 9.7 MB/s | 18 kB 00:00 (38/153): libblkid-2.38.1-3.fc38.x86_64.rpm 65 MB/s | 107 kB 00:00 (39/153): libbrotli-1.0.9-9.fc38.x86_64.rpm 132 MB/s | 316 kB 00:00 (40/153): libcap-2.48-5.fc38.x86_64.rpm 26 MB/s | 67 kB 00:00 (41/153): libcap-ng-0.8.3-4.fc38.x86_64.rpm 12 MB/s | 33 kB 00:00 (42/153): libcom_err-1.46.5-3.fc38.x86_64.rpm 25 MB/s | 26 kB 00:00 (43/153): libcurl-7.87.0-1.fc38.x86_64.rpm 127 MB/s | 302 kB 00:00 (44/153): libdb-5.3.28-54.fc38.x86_64.rpm 182 MB/s | 763 kB 00:00 (45/153): libeconf-0.4.0-4.fc38.x86_64.rpm 8.2 MB/s | 28 kB 00:00 (46/153): libevent-2.1.12-7.fc38.x86_64.rpm 99 MB/s | 259 kB 00:00 (47/153): libfdisk-2.38.1-3.fc38.x86_64.rpm 113 MB/s | 160 kB 00:00 (48/153): libffi-3.4.4-1.fc38.x86_64.rpm 19 MB/s | 38 kB 00:00 (49/153): libidn2-2.3.4-1.fc38.x86_64.rpm 66 MB/s | 154 kB 00:00 (50/153): libmount-2.38.1-3.fc38.x86_64.rpm 68 MB/s | 135 kB 00:00 (51/153): libnghttp2-1.51.0-1.fc38.x86_64.rpm 40 MB/s | 75 kB 00:00 (52/153): libnsl2-2.0.0-4.fc38.x86_64.rpm 26 MB/s | 31 kB 00:00 (53/153): libpkgconf-1.8.0-3.fc38.x86_64.rpm 30 MB/s | 36 kB 00:00 (54/153): libsigsegv-2.14-3.fc38.x86_64.rpm 25 MB/s | 27 kB 00:00 (55/153): libsmartcols-2.38.1-3.fc38.x86_64.rpm 32 MB/s | 64 kB 00:00 (56/153): libssh-0.10.4-2.fc38.x86_64.rpm 92 MB/s | 210 kB 00:00 (57/153): libssh-config-0.10.4-2.fc38.noarch.rp 6.4 MB/s | 9.2 kB 00:00 (58/153): libtasn1-4.19.0-1.fc38.x86_64.rpm 54 MB/s | 76 kB 00:00 (59/153): libtirpc-1.3.3-0.fc38.x86_64.rpm 45 MB/s | 94 kB 00:00 (60/153): libunistring-1.0-2.fc38.x86_64.rpm 157 MB/s | 541 kB 00:00 (61/153): libutempter-1.2.1-7.fc38.x86_64.rpm 20 MB/s | 26 kB 00:00 (62/153): libuuid-2.38.1-3.fc38.x86_64.rpm 14 MB/s | 28 kB 00:00 (63/153): libverto-0.3.2-4.fc38.x86_64.rpm 14 MB/s | 21 kB 00:00 (64/153): libxcrypt-4.4.33-5.fc38.x86_64.rpm 79 MB/s | 120 kB 00:00 (65/153): libxml2-2.10.3-2.fc38.x86_64.rpm 212 MB/s | 704 kB 00:00 (66/153): lua-libs-5.4.4-6.fc38.x86_64.rpm 40 MB/s | 133 kB 00:00 (67/153): lz4-libs-1.9.3-5.fc38.x86_64.rpm 28 MB/s | 70 kB 00:00 (68/153): mpfr-4.1.1-2.fc38.x86_64.rpm 183 MB/s | 599 kB 00:00 (69/153): ncurses-base-6.3-5.20221126.fc38.noar 19 MB/s | 62 kB 00:00 (70/153): ncurses-libs-6.3-5.20221126.fc38.x86_ 127 MB/s | 329 kB 00:00 (71/153): nettle-3.8-2.fc38.x86_64.rpm 164 MB/s | 414 kB 00:00 (72/153): openldap-2.6.3-1.fc38.x86_64.rpm 76 MB/s | 254 kB 00:00 (73/153): openssl-libs-3.0.5-6.fc38.x86_64.rpm 266 MB/s | 2.1 MB 00:00 (74/153): p11-kit-0.24.1-5.fc38.x86_64.rpm 79 MB/s | 360 kB 00:00 (75/153): p11-kit-trust-0.24.1-5.fc38.x86_64.rp 29 MB/s | 138 kB 00:00 (76/153): pam-1.5.2-15.fc38.x86_64.rpm 182 MB/s | 521 kB 00:00 (77/153): pam-libs-1.5.2-15.fc38.x86_64.rpm 32 MB/s | 57 kB 00:00 (78/153): patch-2.7.6-17.fc38.x86_64.rpm 46 MB/s | 125 kB 00:00 (79/153): pcre2-10.40-1.fc38.1.x86_64.rpm 75 MB/s | 236 kB 00:00 (80/153): pcre2-syntax-10.40-1.fc38.1.noarch.rp 71 MB/s | 143 kB 00:00 (81/153): pkgconf-1.8.0-3.fc38.x86_64.rpm 27 MB/s | 42 kB 00:00 (82/153): pkgconf-m4-1.8.0-3.fc38.noarch.rpm 14 MB/s | 15 kB 00:00 (83/153): pkgconf-pkg-config-1.8.0-3.fc38.x86_6 7.2 MB/s | 11 kB 00:00 (84/153): popt-1.19-1.fc38.x86_64.rpm 22 MB/s | 59 kB 00:00 (85/153): qt5-srpm-macros-5.15.7-1.fc38.noarch. 3.5 MB/s | 8.4 kB 00:00 (86/153): readline-8.2-2.fc38.x86_64.rpm 70 MB/s | 212 kB 00:00 (87/153): rpm-4.18.0-8.fc38.x86_64.rpm 174 MB/s | 541 kB 00:00 (88/153): rpm-build-4.18.0-8.fc38.x86_64.rpm 23 MB/s | 70 kB 00:00 (89/153): rpm-build-libs-4.18.0-8.fc38.x86_64.r 41 MB/s | 94 kB 00:00 (90/153): rpm-libs-4.18.0-8.fc38.x86_64.rpm 136 MB/s | 310 kB 00:00 (91/153): rpm-sequoia-1.2.0-1.fc38.x86_64.rpm 206 MB/s | 830 kB 00:00 (92/153): rpmautospec-rpm-macros-0.3.1-1.fc38.n 2.9 MB/s | 9.3 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successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.18-2.fc37.x86_64 1/1 Preparing : 1/1 Installing : libgcc-13.0.0-0.4.fc38.x86_64 1/153 Running scriptlet: libgcc-13.0.0-0.4.fc38.x86_64 1/153 Installing : crypto-policies-20221215-1.gita4c31a3.fc38.noarc 2/153 Running scriptlet: crypto-policies-20221215-1.gita4c31a3.fc38.noarc 2/153 Installing : fedora-release-identity-basic-38-0.6.noarch 3/153 Installing : rust-srpm-macros-23-1.fc38.noarch 4/153 Installing : publicsuffix-list-dafsa-20221208-1.fc38.noarch 5/153 Installing : perl-srpm-macros-1-47.fc38.noarch 6/153 Installing : package-notes-srpm-macros-0.5-6.fc38.noarch 7/153 Installing : openblas-srpm-macros-2-12.fc37.noarch 8/153 Installing : ocaml-srpm-macros-7-2.fc37.noarch 9/153 Installing : nim-srpm-macros-3-7.fc37.noarch 10/153 Installing : kernel-srpm-macros-1.0-15.fc37.noarch 11/153 Installing : gnat-srpm-macros-4-16.fc37.noarch 12/153 Installing : ghc-srpm-macros-1.5.0-7.fc37.noarch 13/153 Installing : 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which-2.21-36.fc38.x86_64 152/153 Installing : info-7.0.1-1.fc38.x86_64 153/153 Running scriptlet: filesystem-3.18-2.fc37.x86_64 153/153 Running scriptlet: ca-certificates-2022.2.54-5.fc37.noarch 153/153 Running scriptlet: authselect-libs-1.4.2-1.fc38.x86_64 153/153 Running scriptlet: rpm-4.18.0-8.fc38.x86_64 153/153 Running scriptlet: info-7.0.1-1.fc38.x86_64 153/153 Verifying : alternatives-1.21-1.fc38.x86_64 1/153 Verifying : authselect-1.4.2-1.fc38.x86_64 2/153 Verifying : authselect-libs-1.4.2-1.fc38.x86_64 3/153 Verifying : bash-5.2.9-3.fc38.x86_64 4/153 Verifying : binutils-2.39-6.fc38.x86_64 5/153 Verifying : binutils-gold-2.39-6.fc38.x86_64 6/153 Verifying : bzip2-1.0.8-12.fc38.x86_64 7/153 Verifying : bzip2-libs-1.0.8-12.fc38.x86_64 8/153 Verifying : coreutils-9.1-8.fc38.x86_64 9/153 Verifying : coreutils-common-9.1-8.fc38.x86_64 10/153 Verifying : cpio-2.13-13.fc38.x86_64 11/153 Verifying : cracklib-2.9.7-30.fc38.x86_64 12/153 Verifying : curl-7.87.0-1.fc38.x86_64 13/153 Verifying : cyrus-sasl-lib-2.1.28-8.fc38.x86_64 14/153 Verifying : diffutils-3.8-3.fc38.x86_64 15/153 Verifying : dwz-0.15-1.fc38.x86_64 16/153 Verifying : ed-1.18-2.fc38.x86_64 17/153 Verifying : elfutils-0.188-3.fc38.x86_64 18/153 Verifying : elfutils-debuginfod-client-0.188-3.fc38.x86_64 19/153 Verifying : elfutils-default-yama-scope-0.188-3.fc38.noarch 20/153 Verifying : elfutils-libelf-0.188-3.fc38.x86_64 21/153 Verifying : elfutils-libs-0.188-3.fc38.x86_64 22/153 Verifying : file-5.42-4.fc38.x86_64 23/153 Verifying : file-libs-5.42-4.fc38.x86_64 24/153 Verifying : findutils-1:4.9.0-2.fc38.x86_64 25/153 Verifying : gawk-5.1.1-4.fc38.x86_64 26/153 Verifying : gdbm-libs-1:1.23-2.fc38.x86_64 27/153 Verifying : gmp-1:6.2.1-3.fc38.x86_64 28/153 Verifying : grep-3.8-1.fc38.x86_64 29/153 Verifying : gzip-1.12-2.fc38.x86_64 30/153 Verifying : info-7.0.1-1.fc38.x86_64 31/153 Verifying : jansson-2.13.1-5.fc38.x86_64 32/153 Verifying : keyutils-libs-1.6.1-5.fc38.x86_64 33/153 Verifying : krb5-libs-1.20.1-3.fc38.x86_64 34/153 Verifying : libacl-2.3.1-4.fc38.x86_64 35/153 Verifying : libarchive-3.6.1-3.fc38.x86_64 36/153 Verifying : libattr-2.5.1-5.fc38.x86_64 37/153 Verifying : libblkid-2.38.1-3.fc38.x86_64 38/153 Verifying : libbrotli-1.0.9-9.fc38.x86_64 39/153 Verifying : libcap-2.48-5.fc38.x86_64 40/153 Verifying : libcap-ng-0.8.3-4.fc38.x86_64 41/153 Verifying : libcom_err-1.46.5-3.fc38.x86_64 42/153 Verifying : libcurl-7.87.0-1.fc38.x86_64 43/153 Verifying : libdb-5.3.28-54.fc38.x86_64 44/153 Verifying : libeconf-0.4.0-4.fc38.x86_64 45/153 Verifying : libevent-2.1.12-7.fc38.x86_64 46/153 Verifying : libfdisk-2.38.1-3.fc38.x86_64 47/153 Verifying : libffi-3.4.4-1.fc38.x86_64 48/153 Verifying : libidn2-2.3.4-1.fc38.x86_64 49/153 Verifying : libmount-2.38.1-3.fc38.x86_64 50/153 Verifying : libnghttp2-1.51.0-1.fc38.x86_64 51/153 Verifying : libnsl2-2.0.0-4.fc38.x86_64 52/153 Verifying : libpkgconf-1.8.0-3.fc38.x86_64 53/153 Verifying : libsigsegv-2.14-3.fc38.x86_64 54/153 Verifying : libsmartcols-2.38.1-3.fc38.x86_64 55/153 Verifying : libssh-0.10.4-2.fc38.x86_64 56/153 Verifying : libssh-config-0.10.4-2.fc38.noarch 57/153 Verifying : libtasn1-4.19.0-1.fc38.x86_64 58/153 Verifying : libtirpc-1.3.3-0.fc38.x86_64 59/153 Verifying : libunistring-1.0-2.fc38.x86_64 60/153 Verifying : libutempter-1.2.1-7.fc38.x86_64 61/153 Verifying : libuuid-2.38.1-3.fc38.x86_64 62/153 Verifying : libverto-0.3.2-4.fc38.x86_64 63/153 Verifying : libxcrypt-4.4.33-5.fc38.x86_64 64/153 Verifying : libxml2-2.10.3-2.fc38.x86_64 65/153 Verifying : lua-libs-5.4.4-6.fc38.x86_64 66/153 Verifying : lz4-libs-1.9.3-5.fc38.x86_64 67/153 Verifying : mpfr-4.1.1-2.fc38.x86_64 68/153 Verifying : ncurses-base-6.3-5.20221126.fc38.noarch 69/153 Verifying : ncurses-libs-6.3-5.20221126.fc38.x86_64 70/153 Verifying : nettle-3.8-2.fc38.x86_64 71/153 Verifying : openldap-2.6.3-1.fc38.x86_64 72/153 Verifying : openssl-libs-1:3.0.5-6.fc38.x86_64 73/153 Verifying : p11-kit-0.24.1-5.fc38.x86_64 74/153 Verifying : p11-kit-trust-0.24.1-5.fc38.x86_64 75/153 Verifying : pam-1.5.2-15.fc38.x86_64 76/153 Verifying : pam-libs-1.5.2-15.fc38.x86_64 77/153 Verifying : patch-2.7.6-17.fc38.x86_64 78/153 Verifying : pcre2-10.40-1.fc38.1.x86_64 79/153 Verifying : pcre2-syntax-10.40-1.fc38.1.noarch 80/153 Verifying : pkgconf-1.8.0-3.fc38.x86_64 81/153 Verifying : pkgconf-m4-1.8.0-3.fc38.noarch 82/153 Verifying : pkgconf-pkg-config-1.8.0-3.fc38.x86_64 83/153 Verifying : popt-1.19-1.fc38.x86_64 84/153 Verifying : qt5-srpm-macros-5.15.7-1.fc38.noarch 85/153 Verifying : readline-8.2-2.fc38.x86_64 86/153 Verifying : rpm-4.18.0-8.fc38.x86_64 87/153 Verifying : rpm-build-4.18.0-8.fc38.x86_64 88/153 Verifying : rpm-build-libs-4.18.0-8.fc38.x86_64 89/153 Verifying : rpm-libs-4.18.0-8.fc38.x86_64 90/153 Verifying : rpm-sequoia-1.2.0-1.fc38.x86_64 91/153 Verifying : rpmautospec-rpm-macros-0.3.1-1.fc38.noarch 92/153 Verifying : sed-4.8-11.fc38.x86_64 93/153 Verifying : shadow-utils-2:4.13-3.fc38.x86_64 94/153 Verifying : sqlite-libs-3.40.0-1.fc38.x86_64 95/153 Verifying : tar-2:1.34-5.fc38.x86_64 96/153 Verifying : tzdata-2022g-1.fc38.noarch 97/153 Verifying : unzip-6.0-58.fc38.x86_64 98/153 Verifying : util-linux-2.38.1-3.fc38.x86_64 99/153 Verifying : util-linux-core-2.38.1-3.fc38.x86_64 100/153 Verifying : which-2.21-36.fc38.x86_64 101/153 Verifying : libgcc-13.0.0-0.4.fc38.x86_64 102/153 Verifying : libgomp-13.0.0-0.4.fc38.x86_64 103/153 Verifying : libstdc++-13.0.0-0.4.fc38.x86_64 104/153 Verifying : ansible-srpm-macros-1-8.1.fc38.noarch 105/153 Verifying : audit-libs-3.0.9-2.fc38.x86_64 106/153 Verifying : basesystem-11-14.fc37.noarch 107/153 Verifying : ca-certificates-2022.2.54-5.fc37.noarch 108/153 Verifying : crypto-policies-20221215-1.gita4c31a3.fc38.noarc 109/153 Verifying : debugedit-5.0-5.fc37.x86_64 110/153 Verifying : efi-srpm-macros-5-6.fc37.noarch 111/153 Verifying : fedora-gpg-keys-38-0.3.noarch 112/153 Verifying : fedora-release-38-0.6.noarch 113/153 Verifying : fedora-release-common-38-0.6.noarch 114/153 Verifying : fedora-release-identity-basic-38-0.6.noarch 115/153 Verifying : fedora-repos-38-0.3.noarch 116/153 Verifying : fedora-repos-rawhide-38-0.3.noarch 117/153 Verifying : filesystem-3.18-2.fc37.x86_64 118/153 Verifying : fonts-srpm-macros-1:2.0.5-10.fc38.noarch 119/153 Verifying : fpc-srpm-macros-1.3-6.fc37.noarch 120/153 Verifying : gdb-minimal-12.1-10.fc38.x86_64 121/153 Verifying : ghc-srpm-macros-1.5.0-7.fc37.noarch 122/153 Verifying : glibc-2.36.9000-19.fc38.x86_64 123/153 Verifying : glibc-common-2.36.9000-19.fc38.x86_64 124/153 Verifying : glibc-gconv-extra-2.36.9000-19.fc38.x86_64 125/153 Verifying : glibc-minimal-langpack-2.36.9000-19.fc38.x86_64 126/153 Verifying : gnat-srpm-macros-4-16.fc37.noarch 127/153 Verifying : go-srpm-macros-3.2.0-1.fc38.noarch 128/153 Verifying : kernel-srpm-macros-1.0-15.fc37.noarch 129/153 Verifying : libpsl-0.21.2-1.fc38.x86_64 130/153 Verifying : libpwquality-1.4.5-1.fc38.x86_64 131/153 Verifying : libselinux-3.5-0.rc1.1.fc38.x86_64 132/153 Verifying : libsemanage-3.5-0.rc1.1.fc38.x86_64 133/153 Verifying : libsepol-3.5-0.rc1.1.fc38.x86_64 134/153 Verifying : libzstd-1.5.2-3.fc37.x86_64 135/153 Verifying : lua-srpm-macros-1-7.fc37.noarch 136/153 Verifying : nim-srpm-macros-3-7.fc37.noarch 137/153 Verifying : ocaml-srpm-macros-7-2.fc37.noarch 138/153 Verifying : openblas-srpm-macros-2-12.fc37.noarch 139/153 Verifying : package-notes-srpm-macros-0.5-6.fc38.noarch 140/153 Verifying : perl-srpm-macros-1-47.fc38.noarch 141/153 Verifying : publicsuffix-list-dafsa-20221208-1.fc38.noarch 142/153 Verifying : python-srpm-macros-3.11-6.fc38.noarch 143/153 Verifying : redhat-rpm-config-236-1.fc38.noarch 144/153 Verifying : rust-srpm-macros-23-1.fc38.noarch 145/153 Verifying : setup-2.14.3-1.fc38.noarch 146/153 Verifying : systemd-libs-252.4-598.fc38.x86_64 147/153 Verifying : xxhash-libs-0.8.1-3.fc37.x86_64 148/153 Verifying : xz-5.2.9-1.fc38.x86_64 149/153 Verifying : xz-libs-5.2.9-1.fc38.x86_64 150/153 Verifying : zip-3.0-35.fc38.x86_64 151/153 Verifying : zlib-1.2.13-1.fc38.x86_64 152/153 Verifying : zstd-1.5.2-3.fc37.x86_64 153/153 Installed: alternatives-1.21-1.fc38.x86_64 ansible-srpm-macros-1-8.1.fc38.noarch audit-libs-3.0.9-2.fc38.x86_64 authselect-1.4.2-1.fc38.x86_64 authselect-libs-1.4.2-1.fc38.x86_64 basesystem-11-14.fc37.noarch bash-5.2.9-3.fc38.x86_64 binutils-2.39-6.fc38.x86_64 binutils-gold-2.39-6.fc38.x86_64 bzip2-1.0.8-12.fc38.x86_64 bzip2-libs-1.0.8-12.fc38.x86_64 ca-certificates-2022.2.54-5.fc37.noarch coreutils-9.1-8.fc38.x86_64 coreutils-common-9.1-8.fc38.x86_64 cpio-2.13-13.fc38.x86_64 cracklib-2.9.7-30.fc38.x86_64 crypto-policies-20221215-1.gita4c31a3.fc38.noarch curl-7.87.0-1.fc38.x86_64 cyrus-sasl-lib-2.1.28-8.fc38.x86_64 debugedit-5.0-5.fc37.x86_64 diffutils-3.8-3.fc38.x86_64 dwz-0.15-1.fc38.x86_64 ed-1.18-2.fc38.x86_64 efi-srpm-macros-5-6.fc37.noarch elfutils-0.188-3.fc38.x86_64 elfutils-debuginfod-client-0.188-3.fc38.x86_64 elfutils-default-yama-scope-0.188-3.fc38.noarch elfutils-libelf-0.188-3.fc38.x86_64 elfutils-libs-0.188-3.fc38.x86_64 fedora-gpg-keys-38-0.3.noarch fedora-release-38-0.6.noarch fedora-release-common-38-0.6.noarch fedora-release-identity-basic-38-0.6.noarch fedora-repos-38-0.3.noarch fedora-repos-rawhide-38-0.3.noarch file-5.42-4.fc38.x86_64 file-libs-5.42-4.fc38.x86_64 filesystem-3.18-2.fc37.x86_64 findutils-1:4.9.0-2.fc38.x86_64 fonts-srpm-macros-1:2.0.5-10.fc38.noarch fpc-srpm-macros-1.3-6.fc37.noarch gawk-5.1.1-4.fc38.x86_64 gdb-minimal-12.1-10.fc38.x86_64 gdbm-libs-1:1.23-2.fc38.x86_64 ghc-srpm-macros-1.5.0-7.fc37.noarch glibc-2.36.9000-19.fc38.x86_64 glibc-common-2.36.9000-19.fc38.x86_64 glibc-gconv-extra-2.36.9000-19.fc38.x86_64 glibc-minimal-langpack-2.36.9000-19.fc38.x86_64 gmp-1:6.2.1-3.fc38.x86_64 gnat-srpm-macros-4-16.fc37.noarch go-srpm-macros-3.2.0-1.fc38.noarch grep-3.8-1.fc38.x86_64 gzip-1.12-2.fc38.x86_64 info-7.0.1-1.fc38.x86_64 jansson-2.13.1-5.fc38.x86_64 kernel-srpm-macros-1.0-15.fc37.noarch keyutils-libs-1.6.1-5.fc38.x86_64 krb5-libs-1.20.1-3.fc38.x86_64 libacl-2.3.1-4.fc38.x86_64 libarchive-3.6.1-3.fc38.x86_64 libattr-2.5.1-5.fc38.x86_64 libblkid-2.38.1-3.fc38.x86_64 libbrotli-1.0.9-9.fc38.x86_64 libcap-2.48-5.fc38.x86_64 libcap-ng-0.8.3-4.fc38.x86_64 libcom_err-1.46.5-3.fc38.x86_64 libcurl-7.87.0-1.fc38.x86_64 libdb-5.3.28-54.fc38.x86_64 libeconf-0.4.0-4.fc38.x86_64 libevent-2.1.12-7.fc38.x86_64 libfdisk-2.38.1-3.fc38.x86_64 libffi-3.4.4-1.fc38.x86_64 libgcc-13.0.0-0.4.fc38.x86_64 libgomp-13.0.0-0.4.fc38.x86_64 libidn2-2.3.4-1.fc38.x86_64 libmount-2.38.1-3.fc38.x86_64 libnghttp2-1.51.0-1.fc38.x86_64 libnsl2-2.0.0-4.fc38.x86_64 libpkgconf-1.8.0-3.fc38.x86_64 libpsl-0.21.2-1.fc38.x86_64 libpwquality-1.4.5-1.fc38.x86_64 libselinux-3.5-0.rc1.1.fc38.x86_64 libsemanage-3.5-0.rc1.1.fc38.x86_64 libsepol-3.5-0.rc1.1.fc38.x86_64 libsigsegv-2.14-3.fc38.x86_64 libsmartcols-2.38.1-3.fc38.x86_64 libssh-0.10.4-2.fc38.x86_64 libssh-config-0.10.4-2.fc38.noarch libstdc++-13.0.0-0.4.fc38.x86_64 libtasn1-4.19.0-1.fc38.x86_64 libtirpc-1.3.3-0.fc38.x86_64 libunistring-1.0-2.fc38.x86_64 libutempter-1.2.1-7.fc38.x86_64 libuuid-2.38.1-3.fc38.x86_64 libverto-0.3.2-4.fc38.x86_64 libxcrypt-4.4.33-5.fc38.x86_64 libxml2-2.10.3-2.fc38.x86_64 libzstd-1.5.2-3.fc37.x86_64 lua-libs-5.4.4-6.fc38.x86_64 lua-srpm-macros-1-7.fc37.noarch lz4-libs-1.9.3-5.fc38.x86_64 mpfr-4.1.1-2.fc38.x86_64 ncurses-base-6.3-5.20221126.fc38.noarch ncurses-libs-6.3-5.20221126.fc38.x86_64 nettle-3.8-2.fc38.x86_64 nim-srpm-macros-3-7.fc37.noarch ocaml-srpm-macros-7-2.fc37.noarch openblas-srpm-macros-2-12.fc37.noarch openldap-2.6.3-1.fc38.x86_64 openssl-libs-1:3.0.5-6.fc38.x86_64 p11-kit-0.24.1-5.fc38.x86_64 p11-kit-trust-0.24.1-5.fc38.x86_64 package-notes-srpm-macros-0.5-6.fc38.noarch pam-1.5.2-15.fc38.x86_64 pam-libs-1.5.2-15.fc38.x86_64 patch-2.7.6-17.fc38.x86_64 pcre2-10.40-1.fc38.1.x86_64 pcre2-syntax-10.40-1.fc38.1.noarch perl-srpm-macros-1-47.fc38.noarch pkgconf-1.8.0-3.fc38.x86_64 pkgconf-m4-1.8.0-3.fc38.noarch pkgconf-pkg-config-1.8.0-3.fc38.x86_64 popt-1.19-1.fc38.x86_64 publicsuffix-list-dafsa-20221208-1.fc38.noarch python-srpm-macros-3.11-6.fc38.noarch qt5-srpm-macros-5.15.7-1.fc38.noarch readline-8.2-2.fc38.x86_64 redhat-rpm-config-236-1.fc38.noarch rpm-4.18.0-8.fc38.x86_64 rpm-build-4.18.0-8.fc38.x86_64 rpm-build-libs-4.18.0-8.fc38.x86_64 rpm-libs-4.18.0-8.fc38.x86_64 rpm-sequoia-1.2.0-1.fc38.x86_64 rpmautospec-rpm-macros-0.3.1-1.fc38.noarch rust-srpm-macros-23-1.fc38.noarch sed-4.8-11.fc38.x86_64 setup-2.14.3-1.fc38.noarch shadow-utils-2:4.13-3.fc38.x86_64 sqlite-libs-3.40.0-1.fc38.x86_64 systemd-libs-252.4-598.fc38.x86_64 tar-2:1.34-5.fc38.x86_64 tzdata-2022g-1.fc38.noarch unzip-6.0-58.fc38.x86_64 util-linux-2.38.1-3.fc38.x86_64 util-linux-core-2.38.1-3.fc38.x86_64 which-2.21-36.fc38.x86_64 xxhash-libs-0.8.1-3.fc37.x86_64 xz-5.2.9-1.fc38.x86_64 xz-libs-5.2.9-1.fc38.x86_64 zip-3.0-35.fc38.x86_64 zlib-1.2.13-1.fc38.x86_64 zstd-1.5.2-3.fc37.x86_64 Complete! Finish: dnf install Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: ncurses-libs-6.3-5.20221126.fc38.x86_64 libeconf-0.4.0-4.fc38.x86_64 fedora-release-identity-basic-38-0.6.noarch nim-srpm-macros-3-7.fc37.noarch libselinux-3.5-0.rc1.1.fc38.x86_64 libgcc-13.0.0-0.4.fc38.x86_64 ed-1.18-2.fc38.x86_64 gnat-srpm-macros-4-16.fc37.noarch cracklib-2.9.7-30.fc38.x86_64 bzip2-libs-1.0.8-12.fc38.x86_64 gmp-6.2.1-3.fc38.x86_64 libssh-config-0.10.4-2.fc38.noarch zip-3.0-35.fc38.x86_64 lua-libs-5.4.4-6.fc38.x86_64 openssl-libs-3.0.5-6.fc38.x86_64 p11-kit-0.24.1-5.fc38.x86_64 alternatives-1.21-1.fc38.x86_64 shadow-utils-4.13-3.fc38.x86_64 diffutils-3.8-3.fc38.x86_64 unzip-6.0-58.fc38.x86_64 mpfr-4.1.1-2.fc38.x86_64 libattr-2.5.1-5.fc38.x86_64 libunistring-1.0-2.fc38.x86_64 lz4-libs-1.9.3-5.fc38.x86_64 libxml2-2.10.3-2.fc38.x86_64 libsemanage-3.5-0.rc1.1.fc38.x86_64 go-srpm-macros-3.2.0-1.fc38.noarch keyutils-libs-1.6.1-5.fc38.x86_64 libpsl-0.21.2-1.fc38.x86_64 libtasn1-4.19.0-1.fc38.x86_64 libsmartcols-2.38.1-3.fc38.x86_64 libpkgconf-1.8.0-3.fc38.x86_64 crypto-policies-20221215-1.gita4c31a3.fc38.noarch glibc-2.36.9000-19.fc38.x86_64 libzstd-1.5.2-3.fc37.x86_64 rpm-sequoia-1.2.0-1.fc38.x86_64 libblkid-2.38.1-3.fc38.x86_64 fedora-release-38-0.6.noarch python-srpm-macros-3.11-6.fc38.noarch elfutils-libelf-0.188-3.fc38.x86_64 glibc-gconv-extra-2.36.9000-19.fc38.x86_64 fedora-release-common-38-0.6.noarch rpmautospec-rpm-macros-0.3.1-1.fc38.noarch coreutils-common-9.1-8.fc38.x86_64 util-linux-2.38.1-3.fc38.x86_64 grep-3.8-1.fc38.x86_64 libsigsegv-2.14-3.fc38.x86_64 ca-certificates-2022.2.54-5.fc37.noarch elfutils-default-yama-scope-0.188-3.fc38.noarch filesystem-3.18-2.fc37.x86_64 bash-5.2.9-3.fc38.x86_64 popt-1.19-1.fc38.x86_64 tzdata-2022g-1.fc38.noarch authselect-1.4.2-1.fc38.x86_64 lua-srpm-macros-1-7.fc37.noarch sed-4.8-11.fc38.x86_64 glibc-minimal-langpack-2.36.9000-19.fc38.x86_64 libcap-2.48-5.fc38.x86_64 util-linux-core-2.38.1-3.fc38.x86_64 findutils-4.9.0-2.fc38.x86_64 pcre2-syntax-10.40-1.fc38.1.noarch jansson-2.13.1-5.fc38.x86_64 xz-libs-5.2.9-1.fc38.x86_64 gzip-1.12-2.fc38.x86_64 which-2.21-36.fc38.x86_64 gdbm-libs-1.23-2.fc38.x86_64 package-notes-srpm-macros-0.5-6.fc38.noarch rpm-build-libs-4.18.0-8.fc38.x86_64 publicsuffix-list-dafsa-20221208-1.fc38.noarch patch-2.7.6-17.fc38.x86_64 xxhash-libs-0.8.1-3.fc37.x86_64 libsepol-3.5-0.rc1.1.fc38.x86_64 fedora-gpg-keys-38-0.3.noarch fpc-srpm-macros-1.3-6.fc37.noarch libtirpc-1.3.3-0.fc38.x86_64 perl-srpm-macros-1-47.fc38.noarch rpm-build-4.18.0-8.fc38.x86_64 libcom_err-1.46.5-3.fc38.x86_64 elfutils-debuginfod-client-0.188-3.fc38.x86_64 gdb-minimal-12.1-10.fc38.x86_64 binutils-2.39-6.fc38.x86_64 rpm-libs-4.18.0-8.fc38.x86_64 pkgconf-pkg-config-1.8.0-3.fc38.x86_64 binutils-gold-2.39-6.fc38.x86_64 debugedit-5.0-5.fc37.x86_64 kernel-srpm-macros-1.0-15.fc37.noarch rpm-4.18.0-8.fc38.x86_64 zlib-1.2.13-1.fc38.x86_64 elfutils-libs-0.188-3.fc38.x86_64 libdb-5.3.28-54.fc38.x86_64 authselect-libs-1.4.2-1.fc38.x86_64 libbrotli-1.0.9-9.fc38.x86_64 libfdisk-2.38.1-3.fc38.x86_64 basesystem-11-14.fc37.noarch libffi-3.4.4-1.fc38.x86_64 libpwquality-1.4.5-1.fc38.x86_64 pam-1.5.2-15.fc38.x86_64 sqlite-libs-3.40.0-1.fc38.x86_64 libidn2-2.3.4-1.fc38.x86_64 libnghttp2-1.51.0-1.fc38.x86_64 nettle-3.8-2.fc38.x86_64 systemd-libs-252.4-598.fc38.x86_64 qt5-srpm-macros-5.15.7-1.fc38.noarch gpg-pubkey-eb10b464-6202d9c6 ghc-srpm-macros-1.5.0-7.fc37.noarch libstdc++-13.0.0-0.4.fc38.x86_64 krb5-libs-1.20.1-3.fc38.x86_64 ansible-srpm-macros-1-8.1.fc38.noarch libverto-0.3.2-4.fc38.x86_64 redhat-rpm-config-236-1.fc38.noarch audit-libs-3.0.9-2.fc38.x86_64 pkgconf-1.8.0-3.fc38.x86_64 gawk-5.1.1-4.fc38.x86_64 tar-1.34-5.fc38.x86_64 p11-kit-trust-0.24.1-5.fc38.x86_64 libevent-2.1.12-7.fc38.x86_64 dwz-0.15-1.fc38.x86_64 libarchive-3.6.1-3.fc38.x86_64 gpg-pubkey-5323552a-6112bcdc file-5.42-4.fc38.x86_64 libgomp-13.0.0-0.4.fc38.x86_64 fedora-repos-rawhide-38-0.3.noarch coreutils-9.1-8.fc38.x86_64 glibc-common-2.36.9000-19.fc38.x86_64 libutempter-1.2.1-7.fc38.x86_64 curl-7.87.0-1.fc38.x86_64 openblas-srpm-macros-2-12.fc37.noarch libacl-2.3.1-4.fc38.x86_64 fedora-repos-38-0.3.noarch fonts-srpm-macros-2.0.5-10.fc38.noarch libnsl2-2.0.0-4.fc38.x86_64 cyrus-sasl-lib-2.1.28-8.fc38.x86_64 libxcrypt-4.4.33-5.fc38.x86_64 efi-srpm-macros-5-6.fc37.noarch xz-5.2.9-1.fc38.x86_64 libmount-2.38.1-3.fc38.x86_64 pkgconf-m4-1.8.0-3.fc38.noarch setup-2.14.3-1.fc38.noarch ncurses-base-6.3-5.20221126.fc38.noarch zstd-1.5.2-3.fc37.x86_64 libcurl-7.87.0-1.fc38.x86_64 readline-8.2-2.fc38.x86_64 openldap-2.6.3-1.fc38.x86_64 file-libs-5.42-4.fc38.x86_64 libuuid-2.38.1-3.fc38.x86_64 elfutils-0.188-3.fc38.x86_64 ocaml-srpm-macros-7-2.fc37.noarch rust-srpm-macros-23-1.fc38.noarch pam-libs-1.5.2-15.fc38.x86_64 libssh-0.10.4-2.fc38.x86_64 libcap-ng-0.8.3-4.fc38.x86_64 bzip2-1.0.8-12.fc38.x86_64 cpio-2.13-13.fc38.x86_64 pcre2-10.40-1.fc38.1.x86_64 info-7.0.1-1.fc38.x86_64 Start: buildsrpm Start: rpmbuild -bs Package glib-2.0 was not found in the pkg-config search path. Perhaps you should add the directory containing `glib-2.0.pc' to the PKG_CONFIG_PATH environment variable Package 'glib-2.0', required by 'virtual:world', not found Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1671753600 Wrote: /builddir/build/SRPMS/wise2-2.4.1-16.fc38.src.rpm Finish: rpmbuild -bs cp: ‘var/lib/mock/fedora-rawhide-x86_64-1672387198.399289/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/fedora-rawhide-x86_64-1672387198.399289/root/var/log/dnf.rpm.log /var/lib/mock/fedora-rawhide-x86_64-1672387198.399289/root/var/log/dnf.librepo.log /var/lib/mock/fedora-rawhide-x86_64-1672387198.399289/root/var/log/dnf.log Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-5g2jp03c/wise2/wise2.spec) Config(child) 1 minutes 19 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot Finish: run Running (timeout=115200): unbuffer mock --rebuild /var/lib/copr-rpmbuild/results/wise2-2.4.1-16.fc38.src.rpm --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1672387198.399289 -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(bootstrap): init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish(bootstrap): init plugins Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/var/lib/copr-rpmbuild/results/wise2-2.4.1-16.fc38.src.rpm) Config(fedora-rawhide-x86_64) Start: clean chroot Finish: clean chroot Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-x86_64-bootstrap-1672387198.399289/root. INFO: reusing tmpfs at /var/lib/mock/fedora-rawhide-x86_64-bootstrap-1672387198.399289/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata INFO: enabled HW Info plugin Mock Version: 3.5 INFO: Mock Version: 3.5 Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-x86_64-1672387198.399289/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 Copr repository 14 kB/s | 3.0 kB 00:00 Copr repository 112 MB/s | 45 MB 00:00 Additional repo https_jakub_fedorapeople_org_fe 7.8 kB/s | 3.0 kB 00:00 fedora 89 kB/s | 23 kB 00:00 Dependencies resolved. Nothing to do. Complete! Finish: dnf update Finish: chroot init Start: build phase for wise2-2.4.1-16.fc38.src.rpm Start: build setup for wise2-2.4.1-16.fc38.src.rpm Package glib-2.0 was not found in the pkg-config search path. Perhaps you should add the directory containing `glib-2.0.pc' to the PKG_CONFIG_PATH environment variable Package 'glib-2.0', required by 'virtual:world', not found Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1671753600 Wrote: /builddir/build/SRPMS/wise2-2.4.1-16.fc38.src.rpm No matches found for the following disable plugin patterns: local, spacewalk, versionlock Copr repository 13 kB/s | 3.0 kB 00:00 Additional repo https_jakub_fedorapeople_org_fe 11 kB/s | 3.0 kB 00:00 fedora 55 kB/s | 23 kB 00:00 Package pkgconf-pkg-config-1.8.0-3.fc38.x86_64 is already installed. Dependencies resolved. ============================================================================================================================= Package Arch Version Repository Size ============================================================================================================================= Installing: gcc x86_64 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 34 M glib2-devel x86_64 2.74.1-2.fc38 copr_base 517 k make x86_64 1:4.3-11.fc38 copr_base 534 k perl x86_64 4:5.36.0-492.fc38 copr_base 16 k strace x86_64 6.1-1.fc38 copr_base 1.4 M Installing dependencies: annobin-docs noarch 10.99-1.0.1.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 93 k annobin-plugin-gcc x86_64 10.99-1.0.1.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 889 k cpp x86_64 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 11 M expat x86_64 2.5.0-1.fc38 copr_base 111 k gc x86_64 8.2.2-1.fc38 copr_base 111 k gcc-c++ x86_64 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 13 M gcc-plugin-annobin x86_64 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 29 k glib2 x86_64 2.74.1-2.fc38 copr_base 2.7 M glibc-devel x86_64 2.36.9000-19.fc38 fedora 47 k glibc-headers-x86 noarch 2.36.9000-19.fc38 fedora 525 k gnupg2 x86_64 2.3.8-1.fc38 copr_base 2.5 M gnutls x86_64 3.7.8-9.fc38 copr_base 1.1 M groff-base x86_64 1.22.4-10.fc38 copr_base 1.0 M guile22 x86_64 2.2.7-6.fc38 copr_base 6.4 M kernel-headers x86_64 6.1.0-1.fc38 fedora 1.5 M libassuan x86_64 2.5.5-5.fc38 copr_base 68 k libb2 x86_64 0.98.1-7.fc38 copr_base 25 k libblkid-devel x86_64 2.38.1-3.fc38 copr_base 17 k libffi-devel x86_64 3.4.4-1.fc38 copr_base 29 k libgcrypt x86_64 1.10.1-6.fc38 copr_base 512 k libgpg-error x86_64 1.46-1.fc38 copr_base 222 k libksba x86_64 1.6.3-1.fc38 copr_base 158 k libmount-devel x86_64 2.38.1-3.fc38 copr_base 18 k libmpc x86_64 1.2.1-5.fc38 copr_base 61 k libselinux-devel x86_64 3.5-0.rc1.1.fc38 fedora 150 k libsepol-devel x86_64 3.5-0.rc1.1.fc38 fedora 49 k libstdc++-devel x86_64 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 2.4 M libtool-ltdl x86_64 2.4.7-3.0.1.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 37 k libxcrypt-devel x86_64 4.4.33-5.fc38 copr_base 31 k mpdecimal x86_64 2.5.1-4.fc38 copr_base 102 k ncurses x86_64 6.3-5.20221126.fc38 copr_base 407 k npth x86_64 1.6-10.fc38 copr_base 25 k pcre2-devel x86_64 10.40-1.fc38.1 copr_base 474 k pcre2-utf16 x86_64 10.40-1.fc38.1 copr_base 216 k pcre2-utf32 x86_64 10.40-1.fc38.1 copr_base 203 k perl-Algorithm-Diff noarch 1.2010-7.fc37 fedora 47 k perl-Archive-Tar noarch 2.40-490.fc37 fedora 71 k perl-Archive-Zip noarch 1.68-9.fc37 fedora 113 k perl-Attribute-Handlers noarch 1.02-492.fc38 copr_base 31 k perl-AutoLoader noarch 5.74-492.fc38 copr_base 25 k perl-AutoSplit noarch 5.74-492.fc38 copr_base 25 k perl-B x86_64 1.83-492.fc38 copr_base 185 k perl-Benchmark noarch 1.23-492.fc38 copr_base 30 k perl-CPAN noarch 2.34-4.fc37 fedora 570 k perl-CPAN-Meta noarch 2.150010-489.fc37 fedora 195 k perl-CPAN-Meta-Requirements noarch 2.140-490.fc37 fedora 31 k perl-CPAN-Meta-YAML noarch 0.018-490.fc37 fedora 26 k perl-Carp noarch 1.52-489.fc37 fedora 29 k perl-Class-Struct noarch 0.66-492.fc38 copr_base 26 k perl-Compress-Bzip2 x86_64 2.28-11.fc38 copr_base 67 k perl-Compress-Raw-Bzip2 x86_64 2.201-2.fc38 copr_base 34 k perl-Compress-Raw-Lzma x86_64 2.201-5.fc38 copr_base 49 k perl-Compress-Raw-Zlib x86_64 2.202-4.fc38 copr_base 64 k perl-Config-Extensions noarch 0.03-492.fc38 copr_base 16 k perl-Config-Perl-V noarch 0.34-1.fc38 fedora 21 k perl-DBM_Filter noarch 0.06-492.fc38 copr_base 35 k perl-DB_File x86_64 1.858-4.fc38 copr_base 81 k perl-Data-Dumper x86_64 2.184-490.fc38 copr_base 56 k perl-Data-OptList noarch 0.112-5.fc37 fedora 27 k perl-Data-Section noarch 0.200007-17.fc37 fedora 25 k perl-Devel-PPPort x86_64 3.68-490.fc38 copr_base 219 k perl-Devel-Peek x86_64 1.32-492.fc38 copr_base 36 k perl-Devel-SelfStubber noarch 1.06-492.fc38 copr_base 18 k perl-Devel-Size x86_64 0.83-13.fc38 copr_base 31 k perl-Digest noarch 1.20-489.fc37 fedora 26 k perl-Digest-MD5 x86_64 2.58-489.fc38 copr_base 36 k perl-Digest-SHA x86_64 1:6.03-1.fc38 copr_base 62 k perl-Digest-SHA1 x86_64 2.13-37.fc38 copr_base 52 k perl-DirHandle noarch 1.05-492.fc38 copr_base 16 k perl-Dumpvalue noarch 2.27-492.fc38 copr_base 22 k perl-DynaLoader x86_64 1.52-492.fc38 copr_base 29 k perl-Encode x86_64 4:3.19-492.fc38 copr_base 1.7 M perl-Encode-devel x86_64 4:3.19-492.fc38 copr_base 42 k perl-English noarch 1.11-492.fc38 copr_base 17 k perl-Env noarch 1.05-489.fc37 fedora 20 k perl-Errno x86_64 1.36-492.fc38 copr_base 18 k perl-Exporter noarch 5.77-489.fc37 fedora 31 k perl-ExtUtils-CBuilder noarch 1:0.280236-490.fc38 copr_base 46 k perl-ExtUtils-Command noarch 2:7.64-490.fc37 fedora 14 k perl-ExtUtils-Constant noarch 0.25-492.fc38 copr_base 50 k perl-ExtUtils-Embed noarch 1.35-492.fc38 copr_base 21 k perl-ExtUtils-Install noarch 2.20-489.fc37 fedora 44 k perl-ExtUtils-MM-Utils noarch 2:7.64-490.fc37 fedora 12 k perl-ExtUtils-MakeMaker noarch 2:7.64-490.fc37 fedora 301 k perl-ExtUtils-Manifest noarch 1:1.73-489.fc37 fedora 34 k perl-ExtUtils-Miniperl noarch 1.11-492.fc38 copr_base 18 k perl-ExtUtils-ParseXS noarch 1:3.45-489.fc37 fedora 188 k perl-Fcntl x86_64 1.15-492.fc38 copr_base 24 k perl-File-Basename noarch 2.85-492.fc38 copr_base 21 k perl-File-Compare noarch 1.100.700-492.fc38 copr_base 17 k perl-File-Copy noarch 2.39-492.fc38 copr_base 23 k perl-File-DosGlob x86_64 1.12-492.fc38 copr_base 23 k perl-File-Fetch noarch 1.04-489.fc37 fedora 31 k perl-File-Find noarch 1.40-492.fc38 copr_base 29 k perl-File-HomeDir noarch 1.006-7.fc37 fedora 62 k perl-File-Path noarch 2.18-489.fc37 fedora 35 k perl-File-Temp noarch 1:0.231.100-489.fc37 fedora 59 k perl-File-Which noarch 1.27-6.fc37 fedora 22 k perl-File-stat noarch 1.12-492.fc38 copr_base 21 k perl-FileCache noarch 1.10-492.fc38 copr_base 18 k perl-FileHandle noarch 2.03-492.fc38 copr_base 19 k perl-Filter x86_64 2:1.64-1.fc38 copr_base 79 k perl-Filter-Simple noarch 0.96-489.fc37 fedora 27 k perl-FindBin noarch 1.53-492.fc38 copr_base 17 k perl-GDBM_File x86_64 1:1.23-492.fc38 copr_base 46 k perl-Getopt-Long noarch 1:2.54-1.fc38 fedora 60 k perl-Getopt-Std noarch 1.13-492.fc38 copr_base 19 k perl-HTTP-Tiny noarch 0.082-1.fc37 fedora 55 k perl-Hash-Util x86_64 0.28-492.fc38 copr_base 37 k perl-Hash-Util-FieldHash x86_64 1.26-492.fc38 copr_base 42 k perl-I18N-Collate noarch 1.02-492.fc38 copr_base 18 k perl-I18N-LangTags noarch 0.45-492.fc38 copr_base 58 k perl-I18N-Langinfo x86_64 0.21-492.fc38 copr_base 26 k perl-IO x86_64 1.50-492.fc38 copr_base 91 k perl-IO-Compress noarch 2.201-3.fc37 fedora 273 k perl-IO-Compress-Lzma noarch 2.201-2.fc37 fedora 79 k perl-IO-Socket-IP noarch 0.41-490.fc37 fedora 42 k perl-IO-Zlib noarch 1:1.11-489.fc37 fedora 19 k perl-IPC-Cmd noarch 2:1.04-490.fc37 fedora 40 k perl-IPC-Open3 noarch 1.22-492.fc38 copr_base 26 k perl-IPC-SysV x86_64 2.09-490.fc38 copr_base 41 k perl-IPC-System-Simple noarch 1.30-9.fc37 fedora 39 k perl-Importer noarch 0.026-8.fc38 fedora 39 k perl-JSON-PP noarch 1:4.15-1.fc38 fedora 67 k perl-Locale-Maketext noarch 1.32-1.fc38 fedora 95 k perl-Locale-Maketext-Simple noarch 1:0.21-492.fc38 copr_base 21 k perl-MIME-Base64 x86_64 3.16-489.fc38 copr_base 30 k perl-MRO-Compat noarch 0.15-4.fc37 fedora 26 k perl-Math-BigInt noarch 1:1.9998.37-2.fc37 fedora 206 k perl-Math-BigInt-FastCalc x86_64 0.501.300-3.fc38 copr_base 28 k perl-Math-BigRat noarch 0.2624-2.fc37 fedora 42 k perl-Math-Complex noarch 1.59-492.fc38 copr_base 50 k perl-Memoize noarch 1.03-492.fc38 copr_base 60 k perl-Module-Build noarch 2:0.42.32-1.fc38 fedora 245 k perl-Module-CoreList noarch 1:5.20221220-1.fc38 fedora 84 k perl-Module-CoreList-tools noarch 1:5.20221220-1.fc38 fedora 18 k perl-Module-Load noarch 1:0.36-489.fc37 fedora 17 k perl-Module-Load-Conditional noarch 0.74-489.fc37 fedora 22 k perl-Module-Loaded noarch 1:0.08-492.fc38 copr_base 17 k perl-Module-Metadata noarch 1.000037-489.fc37 fedora 35 k perl-Module-Signature noarch 0.88-4.fc37 fedora 83 k perl-NDBM_File x86_64 1.15-492.fc38 copr_base 26 k perl-NEXT noarch 0.69-492.fc38 copr_base 24 k perl-Net noarch 1.03-492.fc38 copr_base 29 k perl-Net-Ping noarch 2.75-2.fc38 fedora 50 k perl-ODBM_File x86_64 1.17-492.fc38 copr_base 26 k perl-Object-HashBase noarch 0.009-11.fc38 fedora 25 k perl-Opcode x86_64 1.57-492.fc38 copr_base 40 k perl-POSIX x86_64 2.03-492.fc38 copr_base 101 k perl-Package-Generator noarch 1.106-26.fc37 fedora 23 k perl-Params-Check noarch 1:0.38-489.fc37 fedora 22 k perl-Params-Util x86_64 1.102-9.fc38 copr_base 33 k perl-PathTools x86_64 3.84-489.fc38 copr_base 82 k perl-Perl-OSType noarch 1.010-490.fc38 copr_base 23 k perl-PerlIO-via-QuotedPrint noarch 0.10-3.fc37 fedora 22 k perl-Pod-Checker noarch 4:1.75-3.fc37 fedora 32 k perl-Pod-Escapes noarch 1:1.07-489.fc37 fedora 20 k perl-Pod-Functions noarch 1.14-492.fc38 copr_base 17 k perl-Pod-Html noarch 1.33-492.fc38 copr_base 35 k perl-Pod-Perldoc noarch 3.28.01-490.fc37 fedora 90 k perl-Pod-Simple noarch 1:3.43-490.fc37 fedora 225 k perl-Pod-Usage noarch 4:2.03-3.fc37 fedora 40 k perl-Safe noarch 2.43-492.fc38 copr_base 28 k perl-Scalar-List-Utils x86_64 5:1.63-489.fc38 copr_base 72 k perl-Search-Dict noarch 1.07-492.fc38 copr_base 16 k perl-SelectSaver noarch 1.02-492.fc38 copr_base 15 k perl-SelfLoader noarch 1.26-492.fc38 copr_base 25 k perl-Socket x86_64 4:2.036-1.fc38 copr_base 56 k perl-Software-License noarch 0.104002-2.fc37 fedora 145 k perl-Storable x86_64 1:3.26-489.fc38 copr_base 97 k perl-Sub-Exporter noarch 0.988-5.fc37 fedora 78 k perl-Sub-Install noarch 0.928-33.fc37 fedora 22 k perl-Symbol noarch 1.09-492.fc38 copr_base 18 k perl-Sys-Hostname x86_64 1.24-492.fc38 copr_base 21 k perl-Sys-Syslog x86_64 0.36-490.fc38 copr_base 47 k perl-Term-ANSIColor noarch 5.01-490.fc37 fedora 48 k perl-Term-Cap noarch 1.17-489.fc37 fedora 22 k perl-Term-Complete noarch 1.403-492.fc38 copr_base 16 k perl-Term-ReadLine noarch 1.17-492.fc38 copr_base 22 k perl-Term-Table noarch 0.016-5.fc38 fedora 34 k perl-Test noarch 1.31-492.fc38 copr_base 32 k perl-Test-Harness noarch 1:3.44-490.fc37 fedora 288 k perl-Test-Simple noarch 3:1.302191-2.fc37 fedora 592 k perl-Text-Abbrev noarch 1.02-492.fc38 copr_base 16 k perl-Text-Balanced noarch 2.06-2.fc37 fedora 49 k perl-Text-Diff noarch 1.45-16.fc37 fedora 41 k perl-Text-Glob noarch 0.11-19.fc38 fedora 13 k perl-Text-ParseWords noarch 3.31-489.fc37 fedora 16 k perl-Text-Tabs+Wrap noarch 2021.0814-489.fc37 fedora 22 k perl-Text-Template noarch 1.61-1.fc38 fedora 60 k perl-Thread noarch 3.05-492.fc38 copr_base 22 k perl-Thread-Queue noarch 3.14-489.fc37 fedora 21 k perl-Thread-Semaphore noarch 2.13-492.fc38 copr_base 19 k perl-Tie noarch 4.6-492.fc38 copr_base 35 k perl-Tie-File noarch 1.06-492.fc38 copr_base 47 k perl-Tie-Memoize noarch 1.1-492.fc38 copr_base 18 k perl-Tie-RefHash noarch 1.40-489.fc37 fedora 23 k perl-Time noarch 1.03-492.fc38 copr_base 22 k perl-Time-HiRes x86_64 4:1.9770-489.fc38 copr_base 57 k perl-Time-Local noarch 2:1.300-489.fc37 fedora 33 k perl-Time-Piece x86_64 1.3401-492.fc38 copr_base 45 k perl-URI noarch 5.17-1.fc38 fedora 123 k perl-Unicode-Collate x86_64 1.31-489.fc38 copr_base 730 k perl-Unicode-Normalize x86_64 1.31-489.fc38 copr_base 94 k perl-Unicode-UCD noarch 0.78-492.fc38 copr_base 82 k perl-User-pwent noarch 1.03-492.fc38 copr_base 24 k perl-autodie noarch 2.34-490.fc37 fedora 99 k perl-autouse noarch 1.11-492.fc38 copr_base 17 k perl-base noarch 2.27-492.fc38 copr_base 20 k perl-bignum noarch 0.66-5.fc37 fedora 50 k perl-blib noarch 1.07-492.fc38 copr_base 16 k perl-constant noarch 1.33-490.fc37 fedora 23 k perl-debugger noarch 1.60-492.fc38 copr_base 138 k perl-deprecate noarch 0.04-492.fc38 copr_base 18 k perl-devel x86_64 4:5.36.0-492.fc38 copr_base 699 k perl-diagnostics noarch 1.39-492.fc38 copr_base 214 k perl-doc noarch 5.36.0-492.fc38 copr_base 4.7 M perl-encoding x86_64 4:3.00-492.fc38 copr_base 64 k perl-encoding-warnings noarch 0.13-492.fc38 copr_base 20 k perl-experimental noarch 0.030-1.fc38 fedora 22 k perl-fields noarch 2.27-492.fc38 copr_base 20 k perl-filetest noarch 1.03-492.fc38 copr_base 18 k perl-if noarch 0.61.000-492.fc38 copr_base 17 k perl-inc-latest noarch 2:0.500-23.fc37 fedora 24 k perl-interpreter x86_64 4:5.36.0-492.fc38 copr_base 76 k perl-less noarch 0.03-492.fc38 copr_base 17 k perl-lib x86_64 0.65-492.fc38 copr_base 18 k perl-libnet noarch 3.14-490.fc37 fedora 132 k perl-libnetcfg noarch 4:5.36.0-492.fc38 copr_base 20 k perl-libs x86_64 4:5.36.0-492.fc38 copr_base 2.1 M perl-local-lib noarch 2.000029-3.fc37 fedora 67 k perl-locale noarch 1.10-492.fc38 copr_base 17 k perl-macros noarch 4:5.36.0-492.fc38 copr_base 15 k perl-meta-notation noarch 5.36.0-492.fc38 copr_base 13 k perl-mro x86_64 1.26-492.fc38 copr_base 32 k perl-open noarch 1.13-492.fc38 copr_base 20 k perl-overload noarch 1.35-492.fc38 copr_base 49 k perl-overloading noarch 0.02-492.fc38 copr_base 16 k perl-parent noarch 1:0.239-1.fc38 fedora 14 k perl-perlfaq noarch 5.20210520-489.fc37 fedora 379 k perl-ph x86_64 5.36.0-492.fc38 copr_base 46 k perl-podlators noarch 1:5.00-1.fc38 fedora 127 k perl-sigtrap noarch 1.10-492.fc38 copr_base 19 k perl-sort noarch 2.05-492.fc38 copr_base 17 k perl-subs noarch 1.04-492.fc38 copr_base 15 k perl-threads x86_64 1:2.27-489.fc38 copr_base 58 k perl-threads-shared x86_64 1.64-489.fc38 copr_base 45 k perl-utils noarch 5.36.0-492.fc38 copr_base 59 k perl-vars noarch 1.05-492.fc38 copr_base 16 k perl-version x86_64 8:0.99.29-490.fc38 copr_base 62 k perl-vmsish noarch 1.04-492.fc38 copr_base 18 k python-pip-wheel noarch 22.3.1-1.fc38 fedora 1.4 M python-setuptools-wheel noarch 65.5.1-1.fc38 fedora 715 k python3 x86_64 3.11.1-1.fc38 copr_base 28 k python3-libs x86_64 3.11.1-1.fc38 copr_base 9.2 M python3-pyparsing noarch 3.0.9-2.fc37 fedora 262 k sysprof-capture-devel x86_64 3.46.0-1.fc38 copr_base 59 k systemtap-sdt-devel x86_64 4.8~pre16650659g6a096a7d-1.fc38 copr_base 73 k zlib-devel x86_64 1.2.13-1.fc38 fedora 45 k Transaction Summary ============================================================================================================================= Install 264 Packages Total download size: 115 M Installed size: 384 M Downloading Packages: (1/264): gc-8.2.2-1.fc38.x86_64.rpm 4.3 MB/s | 111 kB 00:00 (2/264): expat-2.5.0-1.fc38.x86_64.rpm 4.0 MB/s | 111 kB 00:00 (3/264): glib2-2.74.1-2.fc38.x86_64.rpm 80 MB/s | 2.7 MB 00:00 (4/264): glib2-devel-2.74.1-2.fc38.x86_64.rpm 48 MB/s | 517 kB 00:00 (5/264): gnutls-3.7.8-9.fc38.x86_64.rpm 98 MB/s | 1.1 MB 00:00 (6/264): gnupg2-2.3.8-1.fc38.x86_64.rpm 126 MB/s | 2.5 MB 00:00 (7/264): groff-base-1.22.4-10.fc38.x86_64.rpm 72 MB/s | 1.0 MB 00:00 (8/264): libassuan-2.5.5-5.fc38.x86_64.rpm 15 MB/s | 68 kB 00:00 (9/264): libb2-0.98.1-7.fc38.x86_64.rpm 5.7 MB/s | 25 kB 00:00 (10/264): guile22-2.2.7-6.fc38.x86_64.rpm 285 MB/s | 6.4 MB 00:00 (11/264): libblkid-devel-2.38.1-3.fc38.x86_64.r 1.8 MB/s | 17 kB 00:00 (12/264): libffi-devel-3.4.4-1.fc38.x86_64.rpm 3.1 MB/s | 29 kB 00:00 (13/264): libgcrypt-1.10.1-6.fc38.x86_64.rpm 205 MB/s | 512 kB 00:00 (14/264): libgpg-error-1.46-1.fc38.x86_64.rpm 72 MB/s | 222 kB 00:00 (15/264): libksba-1.6.3-1.fc38.x86_64.rpm 45 MB/s | 158 kB 00:00 (16/264): libmount-devel-2.38.1-3.fc38.x86_64.r 11 MB/s | 18 kB 00:00 (17/264): libxcrypt-devel-4.4.33-5.fc38.x86_64. 23 MB/s | 31 kB 00:00 (18/264): libmpc-1.2.1-5.fc38.x86_64.rpm 29 MB/s | 61 kB 00:00 (19/264): mpdecimal-2.5.1-4.fc38.x86_64.rpm 97 MB/s | 102 kB 00:00 (20/264): make-4.3-11.fc38.x86_64.rpm 135 MB/s | 534 kB 00:00 (21/264): npth-1.6-10.fc38.x86_64.rpm 12 MB/s | 25 kB 00:00 (22/264): ncurses-6.3-5.20221126.fc38.x86_64.rp 70 MB/s | 407 kB 00:00 (23/264): pcre2-devel-10.40-1.fc38.1.x86_64.rpm 106 MB/s | 474 kB 00:00 (24/264): pcre2-utf16-10.40-1.fc38.1.x86_64.rpm 56 MB/s | 216 kB 00:00 (25/264): pcre2-utf32-10.40-1.fc38.1.x86_64.rpm 74 MB/s | 203 kB 00:00 (26/264): perl-5.36.0-492.fc38.x86_64.rpm 7.1 MB/s | 16 kB 00:00 (27/264): perl-AutoLoader-5.74-492.fc38.noarch. 17 MB/s | 25 kB 00:00 (28/264): perl-Attribute-Handlers-1.02-492.fc38 11 MB/s | 31 kB 00:00 (29/264): perl-AutoSplit-5.74-492.fc38.noarch.r 12 MB/s | 25 kB 00:00 (30/264): perl-B-1.83-492.fc38.x86_64.rpm 73 MB/s | 185 kB 00:00 (31/264): perl-Benchmark-1.23-492.fc38.noarch.r 12 MB/s | 30 kB 00:00 (32/264): perl-Class-Struct-0.66-492.fc38.noarc 9.9 MB/s | 26 kB 00:00 (33/264): perl-Compress-Raw-Bzip2-2.201-2.fc38. 26 MB/s | 34 kB 00:00 (34/264): perl-Compress-Raw-Lzma-2.201-5.fc38.x 19 MB/s | 49 kB 00:00 (35/264): perl-Compress-Raw-Zlib-2.202-4.fc38.x 30 MB/s | 64 kB 00:00 (36/264): perl-Compress-Bzip2-2.28-11.fc38.x86_ 13 MB/s | 67 kB 00:00 (37/264): perl-Config-Extensions-0.03-492.fc38. 6.7 MB/s | 16 kB 00:00 (38/264): perl-DBM_Filter-0.06-492.fc38.noarch. 15 MB/s | 35 kB 00:00 (39/264): perl-DB_File-1.858-4.fc38.x86_64.rpm 31 MB/s | 81 kB 00:00 (40/264): perl-Devel-PPPort-3.68-490.fc38.x86_6 101 MB/s | 219 kB 00:00 (41/264): perl-Data-Dumper-2.184-490.fc38.x86_6 17 MB/s | 56 kB 00:00 (42/264): perl-Devel-Size-0.83-13.fc38.x86_64.r 16 MB/s | 31 kB 00:00 (43/264): perl-Devel-SelfStubber-1.06-492.fc38. 5.9 MB/s | 18 kB 00:00 (44/264): perl-Devel-Peek-1.32-492.fc38.x86_64. 6.8 MB/s | 36 kB 00:00 (45/264): perl-Digest-MD5-2.58-489.fc38.x86_64. 20 MB/s | 36 kB 00:00 (46/264): perl-Digest-SHA-6.03-1.fc38.x86_64.rp 32 MB/s | 62 kB 00:00 (47/264): perl-Digest-SHA1-2.13-37.fc38.x86_64. 20 MB/s | 52 kB 00:00 (48/264): perl-DirHandle-1.05-492.fc38.noarch.r 7.2 MB/s | 16 kB 00:00 (49/264): perl-Dumpvalue-2.27-492.fc38.noarch.r 9.8 MB/s | 22 kB 00:00 (50/264): perl-DynaLoader-1.52-492.fc38.x86_64. 8.8 MB/s | 29 kB 00:00 (51/264): perl-Encode-devel-3.19-492.fc38.x86_6 9.0 MB/s | 42 kB 00:00 (52/264): perl-English-1.11-492.fc38.noarch.rpm 4.1 MB/s | 17 kB 00:00 (53/264): perl-Errno-1.36-492.fc38.x86_64.rpm 4.5 MB/s | 18 kB 00:00 (54/264): perl-Encode-3.19-492.fc38.x86_64.rpm 141 MB/s | 1.7 MB 00:00 (55/264): perl-ExtUtils-CBuilder-0.280236-490.f 8.9 MB/s | 46 kB 00:00 (56/264): perl-ExtUtils-Constant-0.25-492.fc38. 17 MB/s | 50 kB 00:00 (57/264): perl-ExtUtils-Embed-1.35-492.fc38.noa 8.5 MB/s | 21 kB 00:00 (58/264): perl-ExtUtils-Miniperl-1.11-492.fc38. 8.8 MB/s | 18 kB 00:00 (59/264): perl-Fcntl-1.15-492.fc38.x86_64.rpm 9.3 MB/s | 24 kB 00:00 (60/264): perl-File-Basename-2.85-492.fc38.noar 6.4 MB/s | 21 kB 00:00 (61/264): perl-File-Compare-1.100.700-492.fc38. 5.4 MB/s | 17 kB 00:00 (62/264): perl-File-Copy-2.39-492.fc38.noarch.r 7.5 MB/s | 23 kB 00:00 (63/264): perl-File-DosGlob-1.12-492.fc38.x86_6 8.8 MB/s | 23 kB 00:00 (64/264): perl-File-Find-1.40-492.fc38.noarch.r 11 MB/s | 29 kB 00:00 (65/264): perl-File-stat-1.12-492.fc38.noarch.r 8.5 MB/s | 21 kB 00:00 (66/264): perl-FileCache-1.10-492.fc38.noarch.r 6.4 MB/s | 18 kB 00:00 (67/264): perl-FileHandle-2.03-492.fc38.noarch. 7.6 MB/s | 19 kB 00:00 (68/264): perl-Filter-1.64-1.fc38.x86_64.rpm 25 MB/s | 79 kB 00:00 (69/264): perl-FindBin-1.53-492.fc38.noarch.rpm 6.8 MB/s | 17 kB 00:00 (70/264): perl-GDBM_File-1.23-492.fc38.x86_64.r 18 MB/s | 46 kB 00:00 (71/264): perl-Getopt-Std-1.13-492.fc38.noarch. 7.0 MB/s | 19 kB 00:00 (72/264): perl-Hash-Util-FieldHash-1.26-492.fc3 23 MB/s | 42 kB 00:00 (73/264): perl-Hash-Util-0.28-492.fc38.x86_64.r 11 MB/s | 37 kB 00:00 (74/264): perl-I18N-Collate-1.02-492.fc38.noarc 6.6 MB/s | 18 kB 00:00 (75/264): perl-I18N-LangTags-0.45-492.fc38.noar 29 MB/s | 58 kB 00:00 (76/264): perl-I18N-Langinfo-0.21-492.fc38.x86_ 14 MB/s | 26 kB 00:00 (77/264): perl-IO-1.50-492.fc38.x86_64.rpm 31 MB/s | 91 kB 00:00 (78/264): perl-IPC-Open3-1.22-492.fc38.noarch.r 10 MB/s | 26 kB 00:00 (79/264): perl-IPC-SysV-2.09-490.fc38.x86_64.rp 20 MB/s | 41 kB 00:00 (80/264): perl-Locale-Maketext-Simple-0.21-492. 13 MB/s | 21 kB 00:00 (81/264): perl-MIME-Base64-3.16-489.fc38.x86_64 13 MB/s | 30 kB 00:00 (82/264): perl-Math-Complex-1.59-492.fc38.noarc 29 MB/s | 50 kB 00:00 (83/264): perl-Math-BigInt-FastCalc-0.501.300-3 8.4 MB/s | 28 kB 00:00 (84/264): perl-Module-Loaded-0.08-492.fc38.noar 11 MB/s | 17 kB 00:00 (85/264): perl-Memoize-1.03-492.fc38.noarch.rpm 21 MB/s | 60 kB 00:00 (86/264): perl-NDBM_File-1.15-492.fc38.x86_64.r 12 MB/s | 26 kB 00:00 (87/264): perl-Net-1.03-492.fc38.noarch.rpm 15 MB/s | 29 kB 00:00 (88/264): perl-NEXT-0.69-492.fc38.noarch.rpm 8.1 MB/s | 24 kB 00:00 (89/264): perl-ODBM_File-1.17-492.fc38.x86_64.r 9.7 MB/s | 26 kB 00:00 (90/264): perl-Opcode-1.57-492.fc38.x86_64.rpm 17 MB/s | 40 kB 00:00 (91/264): perl-Params-Util-1.102-9.fc38.x86_64. 17 MB/s | 33 kB 00:00 (92/264): perl-POSIX-2.03-492.fc38.x86_64.rpm 29 MB/s | 101 kB 00:00 (93/264): perl-Perl-OSType-1.010-490.fc38.noarc 12 MB/s | 23 kB 00:00 (94/264): 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perl-Config-Perl-V-0.34-1.fc38.noarch 184/264 Verifying : perl-Data-OptList-0.112-5.fc37.noarch 185/264 Verifying : perl-Data-Section-0.200007-17.fc37.noarch 186/264 Verifying : perl-Digest-1.20-489.fc37.noarch 187/264 Verifying : perl-Env-1.05-489.fc37.noarch 188/264 Verifying : perl-Exporter-5.77-489.fc37.noarch 189/264 Verifying : perl-ExtUtils-Command-2:7.64-490.fc37.noarch 190/264 Verifying : perl-ExtUtils-Install-2.20-489.fc37.noarch 191/264 Verifying : perl-ExtUtils-MM-Utils-2:7.64-490.fc37.noarch 192/264 Verifying : perl-ExtUtils-MakeMaker-2:7.64-490.fc37.noarch 193/264 Verifying : perl-ExtUtils-Manifest-1:1.73-489.fc37.noarch 194/264 Verifying : perl-ExtUtils-ParseXS-1:3.45-489.fc37.noarch 195/264 Verifying : perl-File-Fetch-1.04-489.fc37.noarch 196/264 Verifying : perl-File-HomeDir-1.006-7.fc37.noarch 197/264 Verifying : perl-File-Path-2.18-489.fc37.noarch 198/264 Verifying : perl-File-Temp-1:0.231.100-489.fc37.noarch 199/264 Verifying : perl-File-Which-1.27-6.fc37.noarch 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217/264 Verifying : perl-Module-CoreList-tools-1:5.20221220-1.fc38.n 218/264 Verifying : perl-Module-Load-1:0.36-489.fc37.noarch 219/264 Verifying : perl-Module-Load-Conditional-0.74-489.fc37.noarc 220/264 Verifying : perl-Module-Metadata-1.000037-489.fc37.noarch 221/264 Verifying : perl-Module-Signature-0.88-4.fc37.noarch 222/264 Verifying : perl-Net-Ping-2.75-2.fc38.noarch 223/264 Verifying : perl-Object-HashBase-0.009-11.fc38.noarch 224/264 Verifying : perl-Package-Generator-1.106-26.fc37.noarch 225/264 Verifying : perl-Params-Check-1:0.38-489.fc37.noarch 226/264 Verifying : perl-PerlIO-via-QuotedPrint-0.10-3.fc37.noarch 227/264 Verifying : perl-Pod-Checker-4:1.75-3.fc37.noarch 228/264 Verifying : perl-Pod-Escapes-1:1.07-489.fc37.noarch 229/264 Verifying : perl-Pod-Perldoc-3.28.01-490.fc37.noarch 230/264 Verifying : perl-Pod-Simple-1:3.43-490.fc37.noarch 231/264 Verifying : perl-Pod-Usage-4:2.03-3.fc37.noarch 232/264 Verifying : perl-Software-License-0.104002-2.fc37.noarch 233/264 Verifying : perl-Sub-Exporter-0.988-5.fc37.noarch 234/264 Verifying : perl-Sub-Install-0.928-33.fc37.noarch 235/264 Verifying : perl-Term-ANSIColor-5.01-490.fc37.noarch 236/264 Verifying : perl-Term-Cap-1.17-489.fc37.noarch 237/264 Verifying : perl-Term-Table-0.016-5.fc38.noarch 238/264 Verifying : perl-Test-Harness-1:3.44-490.fc37.noarch 239/264 Verifying : perl-Test-Simple-3:1.302191-2.fc37.noarch 240/264 Verifying : perl-Text-Balanced-2.06-2.fc37.noarch 241/264 Verifying : perl-Text-Diff-1.45-16.fc37.noarch 242/264 Verifying : perl-Text-Glob-0.11-19.fc38.noarch 243/264 Verifying : perl-Text-ParseWords-3.31-489.fc37.noarch 244/264 Verifying : perl-Text-Tabs+Wrap-2021.0814-489.fc37.noarch 245/264 Verifying : perl-Text-Template-1.61-1.fc38.noarch 246/264 Verifying : perl-Thread-Queue-3.14-489.fc37.noarch 247/264 Verifying : perl-Tie-RefHash-1.40-489.fc37.noarch 248/264 Verifying : perl-Time-Local-2:1.300-489.fc37.noarch 249/264 Verifying : perl-URI-5.17-1.fc38.noarch 250/264 Verifying 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perl-Data-OptList-0.112-5.fc37.noarch perl-Data-Section-0.200007-17.fc37.noarch perl-Devel-PPPort-3.68-490.fc38.x86_64 perl-Devel-Peek-1.32-492.fc38.x86_64 perl-Devel-SelfStubber-1.06-492.fc38.noarch perl-Devel-Size-0.83-13.fc38.x86_64 perl-Digest-1.20-489.fc37.noarch perl-Digest-MD5-2.58-489.fc38.x86_64 perl-Digest-SHA-1:6.03-1.fc38.x86_64 perl-Digest-SHA1-2.13-37.fc38.x86_64 perl-DirHandle-1.05-492.fc38.noarch perl-Dumpvalue-2.27-492.fc38.noarch perl-DynaLoader-1.52-492.fc38.x86_64 perl-Encode-4:3.19-492.fc38.x86_64 perl-Encode-devel-4:3.19-492.fc38.x86_64 perl-English-1.11-492.fc38.noarch perl-Env-1.05-489.fc37.noarch perl-Errno-1.36-492.fc38.x86_64 perl-Exporter-5.77-489.fc37.noarch perl-ExtUtils-CBuilder-1:0.280236-490.fc38.noarch perl-ExtUtils-Command-2:7.64-490.fc37.noarch perl-ExtUtils-Constant-0.25-492.fc38.noarch perl-ExtUtils-Embed-1.35-492.fc38.noarch perl-ExtUtils-Install-2.20-489.fc37.noarch perl-ExtUtils-MM-Utils-2:7.64-490.fc37.noarch perl-ExtUtils-MakeMaker-2:7.64-490.fc37.noarch perl-ExtUtils-Manifest-1:1.73-489.fc37.noarch perl-ExtUtils-Miniperl-1.11-492.fc38.noarch perl-ExtUtils-ParseXS-1:3.45-489.fc37.noarch perl-Fcntl-1.15-492.fc38.x86_64 perl-File-Basename-2.85-492.fc38.noarch perl-File-Compare-1.100.700-492.fc38.noarch perl-File-Copy-2.39-492.fc38.noarch perl-File-DosGlob-1.12-492.fc38.x86_64 perl-File-Fetch-1.04-489.fc37.noarch perl-File-Find-1.40-492.fc38.noarch perl-File-HomeDir-1.006-7.fc37.noarch perl-File-Path-2.18-489.fc37.noarch perl-File-Temp-1:0.231.100-489.fc37.noarch perl-File-Which-1.27-6.fc37.noarch perl-File-stat-1.12-492.fc38.noarch perl-FileCache-1.10-492.fc38.noarch perl-FileHandle-2.03-492.fc38.noarch perl-Filter-2:1.64-1.fc38.x86_64 perl-Filter-Simple-0.96-489.fc37.noarch perl-FindBin-1.53-492.fc38.noarch perl-GDBM_File-1:1.23-492.fc38.x86_64 perl-Getopt-Long-1:2.54-1.fc38.noarch perl-Getopt-Std-1.13-492.fc38.noarch perl-HTTP-Tiny-0.082-1.fc37.noarch perl-Hash-Util-0.28-492.fc38.x86_64 perl-Hash-Util-FieldHash-1.26-492.fc38.x86_64 perl-I18N-Collate-1.02-492.fc38.noarch perl-I18N-LangTags-0.45-492.fc38.noarch perl-I18N-Langinfo-0.21-492.fc38.x86_64 perl-IO-1.50-492.fc38.x86_64 perl-IO-Compress-2.201-3.fc37.noarch perl-IO-Compress-Lzma-2.201-2.fc37.noarch perl-IO-Socket-IP-0.41-490.fc37.noarch perl-IO-Zlib-1:1.11-489.fc37.noarch perl-IPC-Cmd-2:1.04-490.fc37.noarch perl-IPC-Open3-1.22-492.fc38.noarch perl-IPC-SysV-2.09-490.fc38.x86_64 perl-IPC-System-Simple-1.30-9.fc37.noarch perl-Importer-0.026-8.fc38.noarch perl-JSON-PP-1:4.15-1.fc38.noarch perl-Locale-Maketext-1.32-1.fc38.noarch perl-Locale-Maketext-Simple-1:0.21-492.fc38.noarch perl-MIME-Base64-3.16-489.fc38.x86_64 perl-MRO-Compat-0.15-4.fc37.noarch perl-Math-BigInt-1:1.9998.37-2.fc37.noarch perl-Math-BigInt-FastCalc-0.501.300-3.fc38.x86_64 perl-Math-BigRat-0.2624-2.fc37.noarch perl-Math-Complex-1.59-492.fc38.noarch perl-Memoize-1.03-492.fc38.noarch perl-Module-Build-2:0.42.32-1.fc38.noarch perl-Module-CoreList-1:5.20221220-1.fc38.noarch perl-Module-CoreList-tools-1:5.20221220-1.fc38.noarch perl-Module-Load-1:0.36-489.fc37.noarch perl-Module-Load-Conditional-0.74-489.fc37.noarch perl-Module-Loaded-1:0.08-492.fc38.noarch perl-Module-Metadata-1.000037-489.fc37.noarch perl-Module-Signature-0.88-4.fc37.noarch perl-NDBM_File-1.15-492.fc38.x86_64 perl-NEXT-0.69-492.fc38.noarch perl-Net-1.03-492.fc38.noarch perl-Net-Ping-2.75-2.fc38.noarch perl-ODBM_File-1.17-492.fc38.x86_64 perl-Object-HashBase-0.009-11.fc38.noarch perl-Opcode-1.57-492.fc38.x86_64 perl-POSIX-2.03-492.fc38.x86_64 perl-Package-Generator-1.106-26.fc37.noarch perl-Params-Check-1:0.38-489.fc37.noarch perl-Params-Util-1.102-9.fc38.x86_64 perl-PathTools-3.84-489.fc38.x86_64 perl-Perl-OSType-1.010-490.fc38.noarch perl-PerlIO-via-QuotedPrint-0.10-3.fc37.noarch perl-Pod-Checker-4:1.75-3.fc37.noarch perl-Pod-Escapes-1:1.07-489.fc37.noarch perl-Pod-Functions-1.14-492.fc38.noarch perl-Pod-Html-1.33-492.fc38.noarch perl-Pod-Perldoc-3.28.01-490.fc37.noarch perl-Pod-Simple-1:3.43-490.fc37.noarch perl-Pod-Usage-4:2.03-3.fc37.noarch perl-Safe-2.43-492.fc38.noarch perl-Scalar-List-Utils-5:1.63-489.fc38.x86_64 perl-Search-Dict-1.07-492.fc38.noarch perl-SelectSaver-1.02-492.fc38.noarch perl-SelfLoader-1.26-492.fc38.noarch perl-Socket-4:2.036-1.fc38.x86_64 perl-Software-License-0.104002-2.fc37.noarch perl-Storable-1:3.26-489.fc38.x86_64 perl-Sub-Exporter-0.988-5.fc37.noarch perl-Sub-Install-0.928-33.fc37.noarch perl-Symbol-1.09-492.fc38.noarch perl-Sys-Hostname-1.24-492.fc38.x86_64 perl-Sys-Syslog-0.36-490.fc38.x86_64 perl-Term-ANSIColor-5.01-490.fc37.noarch perl-Term-Cap-1.17-489.fc37.noarch perl-Term-Complete-1.403-492.fc38.noarch perl-Term-ReadLine-1.17-492.fc38.noarch perl-Term-Table-0.016-5.fc38.noarch perl-Test-1.31-492.fc38.noarch perl-Test-Harness-1:3.44-490.fc37.noarch perl-Test-Simple-3:1.302191-2.fc37.noarch perl-Text-Abbrev-1.02-492.fc38.noarch perl-Text-Balanced-2.06-2.fc37.noarch perl-Text-Diff-1.45-16.fc37.noarch perl-Text-Glob-0.11-19.fc38.noarch perl-Text-ParseWords-3.31-489.fc37.noarch perl-Text-Tabs+Wrap-2021.0814-489.fc37.noarch perl-Text-Template-1.61-1.fc38.noarch perl-Thread-3.05-492.fc38.noarch perl-Thread-Queue-3.14-489.fc37.noarch perl-Thread-Semaphore-2.13-492.fc38.noarch perl-Tie-4.6-492.fc38.noarch perl-Tie-File-1.06-492.fc38.noarch perl-Tie-Memoize-1.1-492.fc38.noarch perl-Tie-RefHash-1.40-489.fc37.noarch perl-Time-1.03-492.fc38.noarch perl-Time-HiRes-4:1.9770-489.fc38.x86_64 perl-Time-Local-2:1.300-489.fc37.noarch perl-Time-Piece-1.3401-492.fc38.x86_64 perl-URI-5.17-1.fc38.noarch perl-Unicode-Collate-1.31-489.fc38.x86_64 perl-Unicode-Normalize-1.31-489.fc38.x86_64 perl-Unicode-UCD-0.78-492.fc38.noarch perl-User-pwent-1.03-492.fc38.noarch perl-autodie-2.34-490.fc37.noarch perl-autouse-1.11-492.fc38.noarch perl-base-2.27-492.fc38.noarch perl-bignum-0.66-5.fc37.noarch perl-blib-1.07-492.fc38.noarch perl-constant-1.33-490.fc37.noarch perl-debugger-1.60-492.fc38.noarch perl-deprecate-0.04-492.fc38.noarch perl-devel-4:5.36.0-492.fc38.x86_64 perl-diagnostics-1.39-492.fc38.noarch perl-doc-5.36.0-492.fc38.noarch perl-encoding-4:3.00-492.fc38.x86_64 perl-encoding-warnings-0.13-492.fc38.noarch perl-experimental-0.030-1.fc38.noarch perl-fields-2.27-492.fc38.noarch perl-filetest-1.03-492.fc38.noarch perl-if-0.61.000-492.fc38.noarch perl-inc-latest-2:0.500-23.fc37.noarch perl-interpreter-4:5.36.0-492.fc38.x86_64 perl-less-0.03-492.fc38.noarch perl-lib-0.65-492.fc38.x86_64 perl-libnet-3.14-490.fc37.noarch perl-libnetcfg-4:5.36.0-492.fc38.noarch perl-libs-4:5.36.0-492.fc38.x86_64 perl-local-lib-2.000029-3.fc37.noarch perl-locale-1.10-492.fc38.noarch perl-macros-4:5.36.0-492.fc38.noarch perl-meta-notation-5.36.0-492.fc38.noarch perl-mro-1.26-492.fc38.x86_64 perl-open-1.13-492.fc38.noarch perl-overload-1.35-492.fc38.noarch perl-overloading-0.02-492.fc38.noarch perl-parent-1:0.239-1.fc38.noarch perl-perlfaq-5.20210520-489.fc37.noarch perl-ph-5.36.0-492.fc38.x86_64 perl-podlators-1:5.00-1.fc38.noarch perl-sigtrap-1.10-492.fc38.noarch perl-sort-2.05-492.fc38.noarch perl-subs-1.04-492.fc38.noarch perl-threads-1:2.27-489.fc38.x86_64 perl-threads-shared-1.64-489.fc38.x86_64 perl-utils-5.36.0-492.fc38.noarch perl-vars-1.05-492.fc38.noarch perl-version-8:0.99.29-490.fc38.x86_64 perl-vmsish-1.04-492.fc38.noarch python-pip-wheel-22.3.1-1.fc38.noarch python-setuptools-wheel-65.5.1-1.fc38.noarch python3-3.11.1-1.fc38.x86_64 python3-libs-3.11.1-1.fc38.x86_64 python3-pyparsing-3.0.9-2.fc37.noarch strace-6.1-1.fc38.x86_64 sysprof-capture-devel-3.46.0-1.fc38.x86_64 systemtap-sdt-devel-4.8~pre16650659g6a096a7d-1.fc38.x86_64 zlib-devel-1.2.13-1.fc38.x86_64 Complete! Finish: build setup for wise2-2.4.1-16.fc38.src.rpm Start: rpmbuild wise2-2.4.1-16.fc38.src.rpm Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1671753600 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.kGaYjn + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf wise2.4.1 + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/wise2.4.1.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + cd wise2.4.1 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + echo 'Patch #0 (wise2-build.patch):' Patch #0 (wise2-build.patch): + /usr/bin/patch --no-backup-if-mismatch -f -p1 --fuzz=0 patching file src/makefile patching file src/welcome.csh Patch #1 (wise2-isnumber.patch): + echo 'Patch #1 (wise2-isnumber.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 --fuzz=0 patching file src/models/phasemodel.c Patch #2 (wise2-glib2.patch): + echo 'Patch #2 (wise2-glib2.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 --fuzz=0 patching file src/makefile patching file src/snp/makefile patching file src/corba/makefile patching file src/models/makefile patching file src/dnaindex/makefile patching file src/dnaindex/assembly/makefile patching file src/dynlibsrc/makefile patching file src/network/makefile patching file src/other_programs/makefile patching file src/base/makefile patching file src/HMMer2/Makefile + echo 'Patch #3 (wise2-getline.patch):' Patch #3 (wise2-getline.patch): + /usr/bin/patch --no-backup-if-mismatch -f -p1 --fuzz=0 patching file src/HMMer2/sqio.c Patch #4 (wise2-ld--as-needed.patch): + echo 'Patch #4 (wise2-ld--as-needed.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 --fuzz=0 patching file src/models/makefile Patch #6 (wise2-c99.patch): + echo 'Patch #6 (wise2-c99.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 --fuzz=0 patching file src/HMMer2/prior.c patching file src/external/mott/mott_api.c + chmod a-x src/external/mott/mott_api.c + chmod a-x src/external/mott/mott_api.h + chmod a-x src/external/mott/gaplib.c + chmod a-x src/external/mott/gapstat.h + sed -i s#/usr/local/bin/perl#/usr/bin/perl# docs/gettex.pl + chmod -x test_data/rrm.HMM + for i in base dynlibsrc dyc + cp src/base/LICENSE LICENSE.base + for i in base dynlibsrc dyc + cp src/dynlibsrc/LICENSE LICENSE.dynlibsrc + for i in base dynlibsrc dyc + cp src/dyc/LICENSE LICENSE.dyc + cp src/models/GNULICENSE LICENSE.GPL + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.NSveXx + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd wise2.4.1 + export 'LDFLAGS=-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes' + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes' + make -C src CC=gcc 'CFLAGS= -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L' all make: Entering directory '/builddir/build/BUILD/wise2.4.1/src' (cd base ; make CC="gcc" CFLAGS="-c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L" libwisebase.a ) make[1]: Entering directory '/builddir/build/BUILD/wise2.4.1/src/base' gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L wiseconfig.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L wisestring.c wisestring.dy: In function 'Wise2_breakstring_protect': wisestring.dy:632:21: warning: variable 'c' set but not used [-Wunused-but-set-variable] 632 | auto char c; | ^ wisestring.dy: In function 'Wise2_show_text': wisestring.dy:771:23: warning: 'pushpoi' may be used uninitialized [-Wmaybe-uninitialized] 771 | line=pushpoi+1; | ~~~~^~~~~~~~~~ wisestring.dy:741:9: note: 'pushpoi' was declared here 741 | char *pushpoi; | ^~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L wiseerror.c wiseerror.dy: In function 'Wise2_show_message_stack': wiseerror.dy:176:16: warning: unused variable 'count' [-Wunused-variable] 176 | register int count; | ^~~~~ wiseerror.dy:175:16: warning: unused variable 'j' [-Wunused-variable] 175 | register int j; | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L wisememman.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L wisefile.c wisefile.dy: In function 'Wise2_myfclose': wisefile.dy:72:18: warning: format '%d' expects argument of type 'int', but argument 3 has type 'FILE *' [-Wformat=] 72 | fprintf(stderr,"Closing %d\n",ofp); | ^~~~~~~~~~~~~~ ~~~ | | | FILE * wisefile.dy: In function 'Wise2_append_file_to_path': wisefile.dy:141:10: warning: variable 'runner' set but not used [-Wunused-but-set-variable] 141 | char * runner; | ^~~~~~ wisefile.dy: In function 'Wise2_openfile': wisefile.dy:212:3: warning: 'strncpy' specified bound 12 equals destination size [-Wstringop-truncation] 212 | strncpy(prot,passedprot,12); | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L wiserandom.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L wisetime.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L wiseoverlay.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L wisestreaminterface.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L commandline.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L linesubs.c ar ru libwisebase.a wiseconfig.o wisestring.o wiseerror.o wisememman.o wisefile.o wiserandom.o wisetime.o wiseoverlay.o wisestreaminterface.o commandline.o linesubs.o ar: creating libwisebase.a if test -x /bin/ranlib; then /bin/ranlib libwisebase.a; else exit 0; fi if test -x /usr/bin/ranlib; then /usr/bin/ranlib libwisebase.a; else exit 0; fi make[1]: Leaving directory '/builddir/build/BUILD/wise2.4.1/src/base' (cd HMMer2 ; make CC="gcc" CFLAGS="-c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L" libhmmer.a ) make[1]: Entering directory '/builddir/build/BUILD/wise2.4.1/src/HMMer2' gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c alphabet.c alphabet.c: In function 'DigitizeAlignment': alphabet.c:237:9: warning: suggest parentheses around operand of '!' or change '&' to '&&' or '!' to '~' [-Wparentheses] 237 | if (! ainfo->sqinfo[idx].flags & SQINFO_LEN) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~ alphabet.c: In function 'P7CountSymbol': alphabet.c:264:13: warning: array subscript has type 'char' [-Wchar-subscripts] 264 | counters[symidx] += wt; | ^ alphabet.c: In function 'SetAlphabet': alphabet.c:108:5: warning: 'strncpy' output truncated before terminating nul copying 17 bytes from a string of the same length [-Wstringop-truncation] 108 | strncpy(Alphabet, "ACGTUNRYMKSWHBVDX", 17); | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c core_algorithms.c core_algorithms.c: In function 'P7ViterbiTrace': core_algorithms.c:513:20: warning: 'k' may be used uninitialized [-Wmaybe-uninitialized] 513 | sc = imx[i+1][k] - hmm->isc[(int) dsq[i+1]][k]; | ^ core_algorithms.c:420:7: note: 'k' was declared here 420 | int k; /* position in model (1..M) */ | ^ core_algorithms.c: In function 'P7ParsingViterbi': core_algorithms.c:958:11: warning: 'cur' may be used uninitialized [-Wmaybe-uninitialized] 958 | sc = xmx[cur][XMC] + hmm->xsc[XTC][MOVE]; | ^ core_algorithms.c:846:10: note: 'cur' was declared here 846 | int cur, prv; /* indices for rolling dp matrix */ | ^~~ core_algorithms.c: In function 'P7WeeViterbi': core_algorithms.c:1081:19: warning: 'k2' may be used uninitialized [-Wmaybe-uninitialized] 1081 | kassign[s2] = k2; | ~~~~~~~~~~~~^~~~ core_algorithms.c:1432:16: note: 'k2' was declared here 1432 | int k2; | ^~ core_algorithms.c:1082:19: warning: 't2' may be used uninitialized [-Wmaybe-uninitialized] 1082 | tassign[s2] = t2; | ~~~~~~~~~~~~^~~~ core_algorithms.c:1433:16: note: 't2' was declared here 1433 | enum p7stype t2; | ^~ core_algorithms.c:1240:10: warning: 'ret_sc' may be used uninitialized [-Wmaybe-uninitialized] 1240 | return ret_sc; | ^~~~~~ core_algorithms.c:1047:16: note: 'ret_sc' was declared here 1047 | float ret_sc; /* optimal score over complete seq */ | ^~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c debug.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c emit.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c emulation.c In file included from emulation.c:26: version.h:21:14: warning: 'copyright' defined but not used [-Wunused-variable] 21 | static char *copyright = "\ | ^~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c histogram.c histogram.c: In function 'PrintASCIIHistogram': histogram.c:223:26: warning: 'lowbound' may be used uninitialized [-Wmaybe-uninitialized] 223 | for (num = 0; lowbound > h->lowscore; lowbound--) | ~~~~~~~~~^~~~~~~~~~~~~ histogram.c:200:8: note: 'lowbound' was declared here 200 | int lowbound, lowcount; /* cutoffs on the low side */ | ^~~~~~~~ histogram.c: In function 'EVDMaxLikelyFit': histogram.c:1249:13: warning: 'total' may be used uninitialized [-Wmaybe-uninitialized] 1249 | total += mult; | ~~~~~~^~~~~~~ histogram.c:1171:10: note: 'total' was declared here 1171 | double total; | ^~~~~ histogram.c: In function 'ExtremeValueFitHistogram': histogram.c:659:42: warning: 'z' may be used uninitialized [-Wmaybe-uninitialized] 659 | (mu - (log (-1. * log((double) (n+z-1) / (double)(n+z))) / lambda)); | ~^~ histogram.c:576:10: note: 'z' was declared here 576 | int z; /* number of censored samples */ | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c hmmio.c hmmio.c: In function 'read_asc19hmm': hmmio.c:847:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 847 | if ((s = Getword(fp, sqdARG_INT)) == NULL) goto FAILURE; M = atoi(s); /* model length */ | ^~ hmmio.c:847:64: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 847 | if ((s = Getword(fp, sqdARG_INT)) == NULL) goto FAILURE; M = atoi(s); /* model length */ | ^ hmmio.c:849:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 849 | if ((s = Getword(fp, sqdARG_STRING)) == NULL) goto FAILURE; Plan7SetName(hmm, s); /* name */ | ^~ hmmio.c:849:64: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 849 | if ((s = Getword(fp, sqdARG_STRING)) == NULL) goto FAILURE; Plan7SetName(hmm, s); /* name */ | ^~~~~~~~~~~~ hmmio.c:850:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 850 | if ((s = Getword(fp, sqdARG_STRING)) == NULL) goto FAILURE; s2upper(s); /* alphabet type */ | ^~ hmmio.c:850:64: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 850 | if ((s = Getword(fp, sqdARG_STRING)) == NULL) goto FAILURE; s2upper(s); /* alphabet type */ | ^~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c mathsupport.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c masks.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c misc.c In file included from misc.c:25: version.h:21:14: warning: 'copyright' defined but not used [-Wunused-variable] 21 | static char *copyright = "\ | ^~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c modelmakers.c modelmakers.c: In function 'P7Maxmodelmaker': modelmakers.c:238:11: warning: variable 't_me' set but not used [-Wunused-but-set-variable] 238 | float t_me; /* estimate for an internal M->E transition */ | ^~~~ modelmakers.c: At top level: modelmakers.c:850:1: warning: 'print_matassign' defined but not used [-Wunused-function] 850 | print_matassign(int *matassign, int alen) | ^~~~~~~~~~~~~~~ In file included from structs.h:22, from modelmakers.c:29: modelmakers.c: In function 'P7Maxmodelmaker': modelmakers.c:362:27: warning: 'j' may be used uninitialized [-Wmaybe-uninitialized] 362 | if (isgap(aseqs[idx][j-1])) | ^ modelmakers.c:224:14: note: 'j' was declared here 224 | int i, j; /* positions in alignment */ | ^ modelmakers.c:378:14: warning: 'first' may be used uninitialized [-Wmaybe-uninitialized] 378 | matassign[i] &= ~ASSIGN_INSERT; | ~~~~~~~~~^~~ modelmakers.c:235:11: note: 'first' was declared here 235 | int first, last; /* positions of first and last cols [1..alen] */ | ^~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c plan7.c plan7.c: In function 'Plan7ESTConfig': plan7.c:816:27: warning: 'tripnull' may be used uninitialized [-Wmaybe-uninitialized] 816 | hmm->dnam[x][k] = Prob2Score(p, tripnull[x]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ plan7.c:793:10: note: 'tripnull' was declared here 793 | float *tripnull; /* UNFINISHED!!! */ | ^~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c plan9.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c prior.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c tophits.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c trace.c In file included from trace.c:26: version.h:21:14: warning: 'copyright' defined but not used [-Wunused-variable] 21 | static char *copyright = "\ | ^~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c aligneval.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c alignio.c alignio.c: In function 'ReadAlignedFASTA': alignio.c:143:16: warning: 'aseq' may be used uninitialized [-Wmaybe-uninitialized] 143 | *ret_aseq = aseq; | ~~~~~~~~~~~~~^~~~~~ alignio.c:109:11: note: 'aseq' was declared here 109 | char **aseq; /* aligned sequences */ | ^~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c cluster.c cluster.c: In function 'Cluster': cluster.c:210:31: warning: 'j' may be used uninitialized [-Wmaybe-uninitialized] 210 | tree[Np-2].right = coord[j]; | ^ cluster.c:152:17: note: 'j' was declared here 152 | int i, j; /* coords of minimum difference */ | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c dayhoff.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c file.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c getopt.c getopt.c: In function 'Getopt': getopt.c:118:25: warning: 'opti' may be used uninitialized [-Wmaybe-uninitialized] 118 | *ret_optname = opt[opti].name; | ^ getopt.c:62:7: note: 'opti' was declared here 62 | int opti; | ^~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c gnuregex.c gnuregex.c:35: warning: "_GNU_SOURCE" redefined 35 | #define _GNU_SOURCE | : note: this is the location of the previous definition gnuregex.c: In function 'regex_compile': gnuregex.c:1613:18: warning: suggest explicit braces to avoid ambiguous 'else' [-Wdangling-else] 1613 | if (COMPILE_STACK_EMPTY) | ^ gnuregex.c:1633:18: warning: suggest explicit braces to avoid ambiguous 'else' [-Wdangling-else] 1633 | if (COMPILE_STACK_EMPTY) | ^ gnuregex.c: In function 're_match_2': gnuregex.c:3752:31: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 3752 | if ((int) old_regend[r] >= (int) regstart[r]) | ^ gnuregex.c:3752:54: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 3752 | if ((int) old_regend[r] >= (int) regstart[r]) | ^ gnuregex.c:2315:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2315 | fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item | ^ gnuregex.c:2394:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' 2394 | PUSH_FAILURE_ITEM (lowest_active_reg); \ | ^~~~~~~~~~~~~~~~~ gnuregex.c:3758:19: note: in expansion of macro 'PUSH_FAILURE_POINT' 3758 | PUSH_FAILURE_POINT (p1 + mcnt, d, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2315:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2315 | fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item | ^ gnuregex.c:2397:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' 2397 | PUSH_FAILURE_ITEM (highest_active_reg); \ | ^~~~~~~~~~~~~~~~~ gnuregex.c:3758:19: note: in expansion of macro 'PUSH_FAILURE_POINT' 3758 | PUSH_FAILURE_POINT (p1 + mcnt, d, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2341:11: warning: unused variable 'destination' [-Wunused-variable] 2341 | char *destination; \ | ^~~~~~~~~~~ gnuregex.c:3758:19: note: in expansion of macro 'PUSH_FAILURE_POINT' 3758 | PUSH_FAILURE_POINT (p1 + mcnt, d, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2315:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2315 | fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item | ^ gnuregex.c:2394:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' 2394 | PUSH_FAILURE_ITEM (lowest_active_reg); \ | ^~~~~~~~~~~~~~~~~ gnuregex.c:3905:11: note: in expansion of macro 'PUSH_FAILURE_POINT' 3905 | PUSH_FAILURE_POINT (p + mcnt, NULL, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2315:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2315 | fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item | ^ gnuregex.c:2397:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' 2397 | PUSH_FAILURE_ITEM (highest_active_reg); \ | ^~~~~~~~~~~~~~~~~ gnuregex.c:3905:11: note: in expansion of macro 'PUSH_FAILURE_POINT' 3905 | PUSH_FAILURE_POINT (p + mcnt, NULL, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2341:11: warning: unused variable 'destination' [-Wunused-variable] 2341 | char *destination; \ | ^~~~~~~~~~~ gnuregex.c:3905:11: note: in expansion of macro 'PUSH_FAILURE_POINT' 3905 | PUSH_FAILURE_POINT (p + mcnt, NULL, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2315:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2315 | fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item | ^ gnuregex.c:2394:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' 2394 | PUSH_FAILURE_ITEM (lowest_active_reg); \ | ^~~~~~~~~~~~~~~~~ gnuregex.c:3958:11: note: in expansion of macro 'PUSH_FAILURE_POINT' 3958 | PUSH_FAILURE_POINT (p + mcnt, d, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2315:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2315 | fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item | ^ gnuregex.c:2397:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' 2397 | PUSH_FAILURE_ITEM (highest_active_reg); \ | ^~~~~~~~~~~~~~~~~ gnuregex.c:3958:11: note: in expansion of macro 'PUSH_FAILURE_POINT' 3958 | PUSH_FAILURE_POINT (p + mcnt, d, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2341:11: warning: unused variable 'destination' [-Wunused-variable] 2341 | char *destination; \ | ^~~~~~~~~~~ gnuregex.c:3958:11: note: in expansion of macro 'PUSH_FAILURE_POINT' 3958 | PUSH_FAILURE_POINT (p + mcnt, d, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2482:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 2482 | high_reg = (unsigned) POP_FAILURE_ITEM (); \ | ^ gnuregex.c:4064:13: note: in expansion of macro 'POP_FAILURE_POINT' 4064 | POP_FAILURE_POINT (sdummy, pdummy, | ^~~~~~~~~~~~~~~~~ gnuregex.c:2485:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 2485 | low_reg = (unsigned) POP_FAILURE_ITEM (); \ | ^ gnuregex.c:4064:13: note: in expansion of macro 'POP_FAILURE_POINT' 4064 | POP_FAILURE_POINT (sdummy, pdummy, | ^~~~~~~~~~~~~~~~~ gnuregex.c:4061:19: warning: variable 'sdummy' set but not used [-Wunused-but-set-variable] 4061 | char *sdummy; | ^~~~~~ gnuregex.c:4060:28: warning: variable 'pdummy' set but not used [-Wunused-but-set-variable] 4060 | unsigned char *pdummy; | ^~~~~~ gnuregex.c:2315:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2315 | fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item | ^ gnuregex.c:2394:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' 2394 | PUSH_FAILURE_ITEM (lowest_active_reg); \ | ^~~~~~~~~~~~~~~~~ gnuregex.c:4097:11: note: in expansion of macro 'PUSH_FAILURE_POINT' 4097 | PUSH_FAILURE_POINT (0, 0, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2315:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2315 | fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item | ^ gnuregex.c:2397:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' 2397 | PUSH_FAILURE_ITEM (highest_active_reg); \ | ^~~~~~~~~~~~~~~~~ gnuregex.c:4097:11: note: in expansion of macro 'PUSH_FAILURE_POINT' 4097 | PUSH_FAILURE_POINT (0, 0, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2341:11: warning: unused variable 'destination' [-Wunused-variable] 2341 | char *destination; \ | ^~~~~~~~~~~ gnuregex.c:4097:11: note: in expansion of macro 'PUSH_FAILURE_POINT' 4097 | PUSH_FAILURE_POINT (0, 0, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2315:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2315 | fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item | ^ gnuregex.c:2394:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' 2394 | PUSH_FAILURE_ITEM (lowest_active_reg); \ | ^~~~~~~~~~~~~~~~~ gnuregex.c:4110:11: note: in expansion of macro 'PUSH_FAILURE_POINT' 4110 | PUSH_FAILURE_POINT (0, 0, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2315:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2315 | fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item | ^ gnuregex.c:2397:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' 2397 | PUSH_FAILURE_ITEM (highest_active_reg); \ | ^~~~~~~~~~~~~~~~~ gnuregex.c:4110:11: note: in expansion of macro 'PUSH_FAILURE_POINT' 4110 | PUSH_FAILURE_POINT (0, 0, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2341:11: warning: unused variable 'destination' [-Wunused-variable] 2341 | char *destination; \ | ^~~~~~~~~~~ gnuregex.c:4110:11: note: in expansion of macro 'PUSH_FAILURE_POINT' 4110 | PUSH_FAILURE_POINT (0, 0, -2); | ^~~~~~~~~~~~~~~~~~ gnuregex.c:2482:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 2482 | high_reg = (unsigned) POP_FAILURE_ITEM (); \ | ^ gnuregex.c:4278:11: note: in expansion of macro 'POP_FAILURE_POINT' 4278 | POP_FAILURE_POINT (d, p, | ^~~~~~~~~~~~~~~~~ gnuregex.c:2485:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 2485 | low_reg = (unsigned) POP_FAILURE_ITEM (); \ | ^ gnuregex.c:4278:11: note: in expansion of macro 'POP_FAILURE_POINT' 4278 | POP_FAILURE_POINT (d, p, | ^~~~~~~~~~~~~~~~~ gnuregex.c: In function 'regex_compile': gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:947:34: warning: pointer may be used after 'realloc' [-Wuse-after-free] 947 | laststart = (laststart - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:949:42: warning: pointer may be used after 'realloc' [-Wuse-after-free] 949 | pending_exact = (pending_exact - old_buffer) + bufp->buffer; \ | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:870:14: warning: pointer may be used after 'realloc' [-Wuse-after-free] 870 | while (b - bufp->buffer + (n) > bufp->allocated) \ | ~~^~~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:945:44: warning: pointer may be used after 'realloc' [-Wuse-after-free] 945 | fixup_alt_jump = (fixup_alt_jump - old_buffer) + bufp->buffer;\ | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gnuregex.c:943:26: warning: pointer may be used after 'realloc' [-Wuse-after-free] 943 | begalt = (begalt - old_buffer) + bufp->buffer; \ | ~~~~~~~~^~~~~~~~~~~~~ gnuregex.c:936:38: note: call to 'realloc' here 936 | bufp->buffer = (unsigned char *) realloc (bufp->buffer, bufp->allocated);\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c interleaved.c interleaved.c: In function 'ReadInterleaved': interleaved.c:427:3: warning: 'blocks' may be used uninitialized [-Wmaybe-uninitialized] 427 | free(blocks); | ^~~~~~~~~~~~ interleaved.c:283:6: note: 'blocks' was declared here 283 | } *blocks; | ^~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c iupac.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c msf.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c revcomp.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c selex.c selex.c: In function 'ReadSELEX': selex.c:215:25: warning: 'num' may be used uninitialized [-Wmaybe-uninitialized] 215 | aseqs = (char **) MallocOrDie (num * sizeof(char *)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ selex.c:68:12: note: 'num' was declared here 68 | int num; /* number of seqs read */ | ^~~ selex.c:74:6: warning: 'blocks' may be used uninitialized [-Wmaybe-uninitialized] 74 | } *blocks; | ^~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c sqerror.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c sqio.c sqio.c: In function 'SeqfileFormat': sqio.c:1033:11: warning: the comparison will always evaluate as 'false' for the address of 'sp' will never be NULL [-Waddress] 1033 | if (sp==NULL || *sp=='\0') | ^~ sqio.c:1010:9: note: 'sp' declared here 1010 | char sp[LINEBUFLEN]; | ^~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c sre_ctype.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c sre_math.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c sre_string.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c stack.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c translate.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c types.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c weight.c weight.c: In function 'GSCWeights': weight.c:79:3: warning: 'rwt' may be used uninitialized [-Wmaybe-uninitialized] 79 | downweight(tree, ainfo->nseq, lwt, rwt, fwt, ainfo->nseq); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ weight.c:43:17: note: 'rwt' was declared here 43 | float *lwt, *rwt; /* weight on left, right of this tree node */ | ^~~ weight.c: In function 'VoronoiWeights': weight.c:291:17: warning: 'best' may be used uninitialized [-Wmaybe-uninitialized] 291 | ainfo->wgt[best] += 1.0; | ~~~~~~~~~~^~~~~~ weight.c:163:11: note: 'best' was declared here 163 | int best; /* index of nearest real sequence */ | ^~~~ ar rcv libhmmer.a alphabet.o core_algorithms.o debug.o emit.o emulation.o histogram.o hmmio.o mathsupport.o masks.o misc.o modelmakers.o plan7.o plan9.o prior.o tophits.o trace.o aligneval.o alignio.o cluster.o dayhoff.o file.o getopt.o gnuregex.o interleaved.o iupac.o msf.o revcomp.o selex.o sqerror.o sqio.o sre_ctype.o sre_math.o sre_string.o stack.o translate.o types.o weight.o a - alphabet.o a - core_algorithms.o a - debug.o a - emit.o a - emulation.o a - histogram.o a - hmmio.o a - mathsupport.o a - masks.o a - misc.o a - modelmakers.o a - plan7.o a - plan9.o a - prior.o a - tophits.o a - trace.o a - aligneval.o a - alignio.o a - cluster.o a - dayhoff.o a - file.o a - getopt.o a - gnuregex.o a - interleaved.o a - iupac.o a - msf.o a - revcomp.o a - selex.o a - sqerror.o a - sqio.o a - sre_ctype.o a - sre_math.o a - sre_string.o a - stack.o a - translate.o a - types.o a - weight.o if test -x /bin/ranlib; then /bin/ranlib libhmmer.a; else exit 0; fi if test -x /usr/bin/ranlib; then /usr/bin/ranlib libhmmer.a; else exit 0; fi if test -x ranlib; then ranlib libhmmer.a; else exit 0; fi chmod 644 libhmmer.a make[1]: Leaving directory '/builddir/build/BUILD/wise2.4.1/src/HMMer2' (cd dynlibsrc ; make CC="gcc" CFLAGS="-c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L" libdyna.a ) make[1]: Entering directory '/builddir/build/BUILD/wise2.4.1/src/dynlibsrc' gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ packaln.c packaln.dy: In function 'Wise2_read_simple_PackAln': packaln.dy:88:3: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 88 | fgets(buffer,MAXLINE,ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ aln.c aln.dy: In function 'Wise2_swallow_AlnColumn_multiple': aln.dy:580:16: warning: variable 'i' set but not used [-Wunused-but-set-variable] 580 | register int i; | ^ aln.dy: In function 'Wise2_mapped_ascii_AlnBlock': aln.dy:867:19: warning: too many arguments for format [-Wformat-extra-args] 867 | fprintf(ofp," {%3.2f} ",(double)(*score_to_double)(cuml),cuml); | ^~~~~~~~~~~~ aln.dy: In function 'Wise2_read_dumped_ascii_AlnColumn_line': aln.dy:918:11: warning: variable 'base' set but not used [-Wunused-but-set-variable] 918 | char ** base, **bstr; | ^~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ dnamatrix.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ probability.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ alnrange.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ alnconvert.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ basematrix.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ shattermatrix.c shattermatrix.dy: In function 'Wise2_new_ShatterMatrixComponent': shattermatrix.dy:124:7: warning: unused variable 'j' [-Wunused-variable] 124 | int j; | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ matrixdebug.c matrixdebug.dy: In function 'Wise2_show_PackAln_Debug': matrixdebug.dy:67:7: warning: unused variable 'cum' [-Wunused-variable] 67 | int cum; | ^~~ matrixdebug.dy:66:7: warning: unused variable 'j' [-Wunused-variable] 66 | int j,k; | ^ matrixdebug.dy: In function 'Wise2_user_DebugMatrix': matrixdebug.dy:208:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 208 | fgets(buffer,MAXLINE,in); | ^~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ dpenvelope.c dpenvelope.dy: In function 'Wise2_read_DPEnvelope': dpenvelope.dy:98:11: warning: variable 'base' set but not used [-Wunused-but-set-variable] 98 | char ** base; | ^~~~ dpenvelope.dy: In function 'Wise2_overlap_DPUnit': dpenvelope.dy:68:1: warning: control reaches end of non-void function [-Wreturn-type] 68 | } | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ dbsearchimpl.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ dprunimpl.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ complexsequence.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ complexevalset.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ complexconsensi.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ sequence.c sequence.dy: In function 'Wise2_read_fasta_Sequence': sequence.dy:767:11: warning: unused variable 'seen_weight' [-Wunused-variable] 767 | boolean seen_weight = 0; | ^~~~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ sequencestream.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ seqalign.c seqalign.dy: In function 'Wise2_read_selex_SeqAlign': seqalign.dy:421:25: warning: 'pos' may be used uninitialized [-Wmaybe-uninitialized] 421 | for(seq = buffer+pos;*seq;seq++) { | ~~~~~~^~~~ seqalign.dy:350:7: note: 'pos' was declared here 350 | int pos; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ hitlist.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ hsp.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ hspstream.c hspstream.dy: In function 'Wise2_typed_LinearHSPmanager_from_Stream': hspstream.dy:109:7: warning: unused variable 'i' [-Wunused-variable] 109 | int i; | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ codon.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ compmat.c compmat.dy: In function 'Wise2_write_Blast_CompMat_alphabet.part.0': compmat.dy:307:3: warning: 'minnumbers' may be used uninitialized [-Wmaybe-uninitialized] 307 | fprintf(ofp,"% d",minnumbers[0]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ compmat.dy:268:7: note: 'minnumbers' declared here 268 | int minnumbers[26]; | ^~~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ codonmatrix.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ codonmapper.c codonmapper.dy: In function 'Wise2_new_CodonMapper': codonmapper.dy:379:10: warning: variable 'total_freq' set but not used [-Wunused-but-set-variable] 379 | double total_freq; | ^~~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ sequencedb.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ hscore.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ seqlookup.c seqlookup.dy: In function 'Wise2_load_SequenceDB_SeqLookupLoadPara': seqlookup.dy:143:7: warning: variable 'base' set but not used [-Wunused-but-set-variable] 143 | int base[5]; | ^~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ arrayseqlookup.c arrayseqlookup.dy: In function 'Wise2_add_ArraySeqHead': arrayseqlookup.dy:294:24: warning: variable 'temp' set but not used [-Wunused-but-set-variable] 294 | ArraySeqLookupUnit * temp; | ^~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ genericindexresult.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ linkedlist_lookpos.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ singlenumberspace.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ histogram.c histogram.dy: In function 'Wise2_PrintASCIIHistogram': histogram.dy:299:26: warning: 'lowbound' may be used uninitialized [-Wmaybe-uninitialized] 299 | for (num = 0; lowbound > h->lowscore; lowbound--) | ~~~~~~~~~^~~~~~~~~~~~~ histogram.dy:276:8: note: 'lowbound' was declared here 276 | int lowbound, lowcount; /* cutoffs on the low side */ | ^~~~~~~~ histogram.dy: In function 'Wise2_EVDMaxLikelyFit': histogram.dy:1323:13: warning: 'total' may be used uninitialized [-Wmaybe-uninitialized] 1323 | total += mult; | ~~~~~~^~~~~~~ histogram.dy:1245:10: note: 'total' was declared here 1245 | double total; | ^~~~~ histogram.dy: In function 'Wise2_ExtremeValueFitHistogram': histogram.dy:647:42: warning: 'z' may be used uninitialized [-Wmaybe-uninitialized] 647 | (mu - (log (-1. * log((double) (n+z-1) / (double)(n+z))) / lambda)); | ~^~ histogram.dy:545:10: note: 'z' was declared here 545 | int z; /* number of censored samples */ | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ searchstatinterface.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ searchstatlookup.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ proteindb.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ protein.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ pairbase.c pairbase.dy: In function 'Wise2_diagonal_tweak_PairBaseCodonModel': pairbase.dy:48:7: warning: unused variable 'codon_b' [-Wunused-variable] 48 | int codon_b; | ^~~~~~~ pairbase.dy:47:7: warning: unused variable 'codon_a' [-Wunused-variable] 47 | int codon_a; | ^~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ pairbaseseq.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ genomicdb.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ randommodel.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ randomdb.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ genomic.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ cdna.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ cdnadb.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ dna.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ embl.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ genomicregion.c genomicregion.dy: In function 'Wise2_read_EMBL_FT_into_GenomicRegion': genomicregion.dy:756:3: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 756 | fgets(buffer,maxlen,ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ gene.c gene.dy: In function 'Wise2_write_Embl_FT_Gene': gene.dy:404:11: warning: 'tr' may be used uninitialized [-Wmaybe-uninitialized] 404 | if( tr->ex_len > 1 ) { | ~~^~~~~~~~ gene.dy:364:16: note: 'tr' was declared here 364 | Transcript * tr; | ^~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ transcript.c transcript.dy: In function 'Wise2_show_Transcript': transcript.dy:170:23: warning: unused variable 'sf' [-Wunused-variable] 170 | SupportingFeature * sf; | ^~ transcript.dy:169:7: warning: unused variable 'k' [-Wunused-variable] 169 | int k; | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ translation.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ btcanvas.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ asciibtcanvas.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ dynlibcross.c ar ru libdyna.a packaln.o aln.o dnamatrix.o probability.o alnrange.o alnconvert.o basematrix.o shattermatrix.o matrixdebug.o dpenvelope.o dbsearchimpl.o dprunimpl.o complexsequence.o complexevalset.o complexconsensi.o sequence.o sequencestream.o seqalign.o hitlist.o hsp.o hspstream.o codon.o compmat.o codonmatrix.o codonmapper.o sequencedb.o hscore.o seqlookup.o arrayseqlookup.o genericindexresult.o linkedlist_lookpos.o singlenumberspace.o histogram.o searchstatinterface.o searchstatlookup.o proteindb.o protein.o pairbase.o pairbaseseq.o genomicdb.o randommodel.o randomdb.o genomic.o cdna.o cdnadb.o dna.o embl.o genomicregion.o gene.o transcript.o translation.o btcanvas.o asciibtcanvas.o dynlibcross.o ar: creating libdyna.a if test -x /bin/ranlib; then /bin/ranlib libdyna.a; else exit 0; fi if test -x /usr/bin/ranlib; then /usr/bin/ranlib libdyna.a; else exit 0; fi make[1]: Leaving directory '/builddir/build/BUILD/wise2.4.1/src/dynlibsrc' (cd dynlibsrc ; make CC="gcc" CFLAGS="-c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L" libdyna_glib.a ) make[1]: Entering directory '/builddir/build/BUILD/wise2.4.1/src/dynlibsrc' gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ subseqhash.c subseqhash.dy: In function 'Wise2_is_populated_subseqhash_ghash': subseqhash.dy:111:29: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 111 | if( g_hash_table_lookup(h,(gconstpointer)seq_number) == NULL ) { | ^ subseqhash.dy: In function 'Wise2_lookup_subseqhash_ghash': subseqhash.dy:128:85: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 128 | return new_linkedl_SeqLookupResultInterface((SeqLookupPos *)g_hash_table_lookup(h,(gconstpointer)seq_number)); | ^ subseqhash.dy: In function 'Wise2_add_seq_subseqhash_ghash': subseqhash.dy:160:54: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 160 | if((ret = (SeqLookupPos *) g_hash_table_lookup(h,(gconstpointer)seq_number)) == NULL ) { | ^ subseqhash.dy:161:29: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 161 | g_hash_table_insert(h,(gpointer)seq_number,p); | ^ subseqhash.dy: In function 'Wise2_add_direct_number_subseqhash_ghash': subseqhash.dy:188:52: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 188 | if((ret = (SeqLookupPos *) g_hash_table_lookup(h,(gconstpointer)seq_number)) == NULL ) { | ^ subseqhash.dy:189:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 189 | g_hash_table_insert(h,(gpointer)seq_number,p); | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ intallocator.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ proteinstreamedindex.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ shadowseq.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ shadowseqindex.c shadowseqindex.dy: In function 'Wise2_dump_stats_ShadowSequenceIndex': shadowseqindex.dy:285:15: warning: format '%f' expects argument of type 'double', but argument 4 has type 'long unsigned int' [-Wformat=] 285 | fprintf(ofp,"Head memory %d [%.2f Mbytes]\n",total_head,(total_head*sizeof(ShadowArraySeqHead))/100000); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | long unsigned int gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ hsphandler.c hsphandler.dy: In function 'Wise2_truncated_LinearHSPmanager': hsphandler.dy:278:13: warning: variable 'worst' set but not used [-Wunused-but-set-variable] 278 | HSPset ** worst; | ^~~~~ hsphandler.dy: In function 'Wise2_new_consistent_HSPset': hsphandler.dy:342:7: warning: variable 'eaten' set but not used [-Wunused-but-set-variable] 342 | int eaten; | ^~~~~ hsphandler.dy: In function 'Wise2_new_LinearHSPmanager_simple_heuristic': hsphandler.dy:387:7: warning: unused variable 'j' [-Wunused-variable] 387 | int j; | ^ hsphandler.dy:386:7: warning: unused variable 'i' [-Wunused-variable] 386 | int i; | ^ hsphandler.dy: In function 'Wise2_new_HSP_QuerySeqHSP': hsphandler.dy:786:15: warning: variable 'pause_j' set but not used [-Wunused-but-set-variable] 786 | int pause_i,pause_j; | ^~~~~~~ hsphandler.dy:786:7: warning: variable 'pause_i' set but not used [-Wunused-but-set-variable] 786 | int pause_i,pause_j; | ^~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ hspscaninterface.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ hsp2hitscan.c hsp2hitscan.dy: In function 'Wise2_one_off_two_hit_HSPscan_query_direct': hsp2hitscan.dy:209:18: warning: format '%d' expects argument of type 'int', but argument 3 has type '__time_t' {aka 'long int'} [-Wformat=] 209 | fprintf(stderr,"START %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ 210 | use.ru_utime.tv_sec, | ~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:209:18: warning: format '%d' expects argument of type 'int', but argument 4 has type '__time_t' {aka 'long int'} [-Wformat=] 209 | fprintf(stderr,"START %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ 210 | use.ru_utime.tv_sec, 211 | use.ru_utime.tv_sec/1000, | ~~~~~~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:209:18: warning: format '%d' expects argument of type 'int', but argument 5 has type '__time_t' {aka 'long int'} [-Wformat=] 209 | fprintf(stderr,"START %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 212 | use.ru_stime.tv_sec, | ~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:209:18: warning: format '%d' expects argument of type 'int', but argument 6 has type '__time_t' {aka 'long int'} [-Wformat=] 209 | fprintf(stderr,"START %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 213 | use.ru_stime.tv_sec/1000 | ~~~~~~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:273:18: warning: format '%d' expects argument of type 'int', but argument 3 has type '__time_t' {aka 'long int'} [-Wformat=] 273 | fprintf(stderr,"END OF SEED %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 274 | use.ru_utime.tv_sec, | ~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:273:18: warning: format '%d' expects argument of type 'int', but argument 4 has type '__time_t' {aka 'long int'} [-Wformat=] 273 | fprintf(stderr,"END OF SEED %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 274 | use.ru_utime.tv_sec, 275 | use.ru_utime.tv_sec/1000, | ~~~~~~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:273:18: warning: format '%d' expects argument of type 'int', but argument 5 has type '__time_t' {aka 'long int'} [-Wformat=] 273 | fprintf(stderr,"END OF SEED %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 276 | use.ru_stime.tv_sec, | ~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:273:18: warning: format '%d' expects argument of type 'int', but argument 6 has type '__time_t' {aka 'long int'} [-Wformat=] 273 | fprintf(stderr,"END OF SEED %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 277 | use.ru_stime.tv_sec/1000 | ~~~~~~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:286:18: warning: format '%d' expects argument of type 'int', but argument 3 has type '__time_t' {aka 'long int'} [-Wformat=] 286 | fprintf(stderr,"POPULATION %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 287 | use.ru_utime.tv_sec, | ~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:286:18: warning: format '%d' expects argument of type 'int', but argument 4 has type '__time_t' {aka 'long int'} [-Wformat=] 286 | fprintf(stderr,"POPULATION %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 287 | use.ru_utime.tv_sec, 288 | use.ru_utime.tv_sec/1000, | ~~~~~~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:286:18: warning: format '%d' expects argument of type 'int', but argument 5 has type '__time_t' {aka 'long int'} [-Wformat=] 286 | fprintf(stderr,"POPULATION %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 289 | use.ru_stime.tv_sec, | ~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:286:18: warning: format '%d' expects argument of type 'int', but argument 6 has type '__time_t' {aka 'long int'} [-Wformat=] 286 | fprintf(stderr,"POPULATION %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 290 | use.ru_stime.tv_sec/1000 | ~~~~~~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:302:18: warning: format '%d' expects argument of type 'int', but argument 3 has type '__time_t' {aka 'long int'} [-Wformat=] 302 | fprintf(stdout,"LINEARISED %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 303 | use.ru_utime.tv_sec, | ~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:302:18: warning: format '%d' expects argument of type 'int', but argument 4 has type '__time_t' {aka 'long int'} [-Wformat=] 302 | fprintf(stdout,"LINEARISED %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 303 | use.ru_utime.tv_sec, 304 | use.ru_utime.tv_sec/1000, | ~~~~~~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:302:18: warning: format '%d' expects argument of type 'int', but argument 5 has type '__time_t' {aka 'long int'} [-Wformat=] 302 | fprintf(stdout,"LINEARISED %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 305 | use.ru_stime.tv_sec, | ~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:302:18: warning: format '%d' expects argument of type 'int', but argument 6 has type '__time_t' {aka 'long int'} [-Wformat=] 302 | fprintf(stdout,"LINEARISED %d.%03du %d.%03ds \n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 306 | use.ru_stime.tv_sec/1000 | ~~~~~~~~~~~~~~~~~~~~~~~~ | | | __time_t {aka long int} hsp2hitscan.dy:192:9: warning: unused variable 'k' [-Wunused-variable] 192 | int i,k,j; | ^ hsp2hitscan.dy:185:7: warning: variable 'score' set but not used [-Wunused-but-set-variable] 185 | int score; | ^~~~~ hsp2hitscan.dy:183:7: warning: variable 'no' set but not used [-Wunused-but-set-variable] 183 | int no; | ^~ hsp2hitscan.dy:182:18: warning: unused variable 'head' [-Wunused-variable] 182 | ArraySeqHead * head; | ^~~~ hsp2hitscan.dy:181:7: warning: unused variable 'start_base' [-Wunused-variable] 181 | int start_base; | ^~~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ hsplookupscan.c hsplookupscan.dy: In function 'Wise2_one_off_HSPscan_scan_query_direct': hsplookupscan.dy:144:8: warning: variable 'newseq' set but not used [-Wunused-but-set-variable] 144 | char newseq[5]; | ^~~~~~ hsplookupscan.dy:143:7: warning: variable 'score' set but not used [-Wunused-but-set-variable] 143 | int score; | ^~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ hsplookupthreaded.c hsplookupthreaded.dy: In function 'Wise2_one_off_ordered_HSPscan_scan_query_direct': hsplookupthreaded.dy:263:18: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=] 263 | fprintf(stderr,"retrieved array with %d elements\n",current_oph); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~ | | | long int hsplookupthreaded.dy:136:7: warning: variable 'score' set but not used [-Wunused-but-set-variable] 136 | int score; | ^~~~~ hsplookupthreaded.dy:116:22: warning: unused variable 'hsp_para' [-Wunused-variable] 116 | LineariseHSPPara * hsp_para; | ^~~~~~~~ hsplookupthreaded.dy: In function 'Wise2_hsp_thread_worker': hsplookupthreaded.dy:659:27: warning: variable 'asl' set but not used [-Wunused-but-set-variable] 659 | auto ArraySeqLookup * asl; | ^~~ hsplookupthreaded.dy:627:8: warning: variable 'newseq' set but not used [-Wunused-but-set-variable] 627 | char newseq[5]; | ^~~~~~ hsplookupthreaded.dy:621:7: warning: variable 'score' set but not used [-Wunused-but-set-variable] 621 | int score; | ^~~~~ hsplookupthreaded.dy: In function 'Wise2_merge_HSPmanager': hsplookupthreaded.dy:567:1: warning: control reaches end of non-void function [-Wreturn-type] 567 | } | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ hspthreadeddb.c hspthreadeddb.dy: In function 'Wise2_threadeddb_scan_worker': hspthreadeddb.dy:154:77: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 154 | fprintf(stderr,"For segment %d, finished query with %d (%d) linear\n",seg,(int)seg->lm,seg->lm->len); | ^ hspthreadeddb.dy:154:18: warning: format '%d' expects argument of type 'int', but argument 3 has type 'Wise2_HSPDatabaseSegment *' [-Wformat=] 154 | fprintf(stderr,"For segment %d, finished query with %d (%d) linear\n",seg,(int)seg->lm,seg->lm->len); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ | | | Wise2_HSPDatabaseSegment * gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ hspscanruntime.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ hsptwohitscan.c hsptwohitscan.dy: In function 'Wise2_twohit_one_off_HSPscan_scan_query_direct': hsptwohitscan.dy:113:7: warning: variable 'has_seen' set but not used [-Wunused-but-set-variable] 113 | int has_seen; | ^~~~~~~~ hsptwohitscan.dy:105:8: warning: variable 'newseq' set but not used [-Wunused-but-set-variable] 105 | char newseq[5]; | ^~~~~~ hsptwohitscan.dy:104:7: warning: variable 'score' set but not used [-Wunused-but-set-variable] 104 | int score; | ^~~~~ hsptwohitscan.dy: In function 'Wise2_add_to_TwoHitBuffer': hsptwohitscan.dy:354:7: warning: unused variable 'j' [-Wunused-variable] 354 | int j; | ^ hsptwohitscan.dy:353:7: warning: unused variable 'i' [-Wunused-variable] 353 | int i; | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ proteinindexcons.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ dnaindexcons.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ staticseq.c ar ru libdyna_glib.a subseqhash.o intallocator.o proteinstreamedindex.o shadowseq.o shadowseqindex.o hsphandler.o hspscaninterface.o hsp2hitscan.o hsplookupscan.o hsplookupthreaded.o hspthreadeddb.o hspscanruntime.o hsptwohitscan.o proteinindexcons.o dnaindexcons.o staticseq.o ar: creating libdyna_glib.a if test -x /bin/ranlib; then /bin/ranlib libdyna_glib.a; else exit 0; fi if test -x /usr/bin/ranlib; then /usr/bin/ranlib libdyna_glib.a; else exit 0; fi make[1]: Leaving directory '/builddir/build/BUILD/wise2.4.1/src/dynlibsrc' (cd external ; make CC="gcc" CFLAGS="-c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L" all ) make[1]: Entering directory '/builddir/build/BUILD/wise2.4.1/src/external' (cd mott; make CC="gcc" CFLAGS="-c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L" all) make[2]: Entering directory '/builddir/build/BUILD/wise2.4.1/src/external/mott' gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c -o mott_api.o mott_api.c mott_api.c: In function 'KarlinAltschulStatistics2': mott_api.c:152:9: warning: unused variable 'n' [-Wunused-variable] 152 | int n; | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -c -o gaplib.o gaplib.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../../dynlibsrc -I../../base wise2_mott_bridge.c ar ru libmott.a mott_api.o gaplib.o wise2_mott_bridge.o ar: creating libmott.a if test -x /bin/ranlib; then /bin/ranlib libmott.a; else exit 0; fi if test -x /usr/bin/ranlib; then /usr/bin/ranlib libmott.a; else exit 0; fi make[2]: Leaving directory '/builddir/build/BUILD/wise2.4.1/src/external/mott' make[1]: Leaving directory '/builddir/build/BUILD/wise2.4.1/src/external' (cd socket ; make CC="gcc" CFLAGS="-c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L" libwisesocket.a ) make[1]: Entering directory '/builddir/build/BUILD/wise2.4.1/src/socket' gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ functionserver.c functionserver.dy: In function 'Wise2_main_loop_forking_FunctionServer': functionserver.dy:55:10: warning: unused variable 'ofp' [-Wunused-variable] 55 | FILE * ofp; | ^~~ functionserver.dy: In function 'Wise2_new_FunctionServer': functionserver.dy:216:21: warning: unused variable 'name' [-Wunused-variable] 216 | struct sockaddr * name; | ^~~~ functionserver.dy: In function 'Wise2_main_loop_forking_FunctionServer': functionserver.dy:129:11: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 129 | write(new_socket,buf,9); | ^~~~~~~~~~~~~~~~~~~~~~~ functionserver.dy:141:9: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 141 | write(new_socket,buf,6); | ^~~~~~~~~~~~~~~~~~~~~~~ functionserver.dy:183:9: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 183 | write(new_socket,buf,5); | ^~~~~~~~~~~~~~~~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ functionclient.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ anonobj.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ transferinterface.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ directsocketwrite.c ar ru libwisesocket.a functionserver.o functionclient.o anonobj.o transferinterface.o directsocketwrite.o ar: creating libwisesocket.a if test -x /bin/ranlib; then /bin/ranlib libwisesocket.a; else exit 0; fi if test -x /usr/bin/ranlib; then /usr/bin/ranlib libwisesocket.a; else exit 0; fi make[1]: Leaving directory '/builddir/build/BUILD/wise2.4.1/src/socket' (cd dnaindex ; make CC="gcc" CFLAGS="-c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L" all ) make[1]: Entering directory '/builddir/build/BUILD/wise2.4.1/src/dnaindex' gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models kmer_assembly.c kmer_assembly.dy: In function 'Wise2_show_KmerAssemblyNode': kmer_assembly.dy:296:15: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 296 | fprintf(ofp,"Node %ld of sequence %s \n",node->number,buffer); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_assembly.dy:302:17: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 302 | fprintf(ofp," ... prev ... %c, %d to %ld\n",node->prev[i]->base,node->prev[i]->sequence_label_len,node->prev[i]->prev->number); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_assembly.dy:309:17: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 309 | fprintf(ofp," ... next ... %c, %d to %ld\n",node->next[i]->base,node->next[i]->sequence_label_len,node->next[i]->next->number); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_assembly.dy: In function 'Wise2_remove_sequence_label_KmerAssemblyLink': kmer_assembly.dy:365:18: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'KmerAssemblyLink *' [-Wformat=] 365 | fprintf(stderr," ...unable to remove label %ld from link %ld (%d labels)\n",label,kal,kal->sequence_label_len); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ | | | KmerAssemblyLink * kmer_assembly.dy:367:20: warning: format '%d' expects a matching 'int' argument [-Wformat=] 367 | fprintf(stderr," [%ld] is %d label\n",kal->sequence_label[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models kmer_index_interface.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models kmer_direct.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models kmer_hash.c kmer_hash.dy: In function 'Wise2_insert_by_kmer_KmerHashIndex': kmer_hash.dy:252:7: warning: unused variable 'i' [-Wunused-variable] 252 | int i; | ^ kmer_hash.dy: In function 'Wise2_free_KmerHashIndex': kmer_hash.dy:318:19: warning: format '%lx' expects argument of type 'long unsigned int', but argument 3 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 318 | fprintf(stderr, "min_kmer: %016lx\n", khi->min_kmer); | ^~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_hash.dy:319:19: warning: format '%lx' expects argument of type 'long unsigned int', but argument 3 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 319 | fprintf(stderr, "max_kmer: %016lx\n", khi->max_kmer); | ^~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | kmer_t {aka long long int} gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models kmer_count.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models kmer_glib_index.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models singleseqspace.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models dnamapping.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models largeseqreader.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models kmer_assembly_untangler.c kmer_assembly_untangler.dy: In function 'Wise2_show_KmerAssemblyPath': kmer_assembly_untangler.dy:52:65: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 52 | fprintf(ofp,"%3d memory %d, from [%s] to [%s], base %c\n",i,(int)kap->stack[i],back,forw,kap->stack[i]->base); | ^ kmer_assembly_untangler.dy: In function 'Wise2_untangle_KmerAssembly': kmer_assembly_untangler.dy:120:22: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 120 | fprintf(stderr,"TANGLE: Node %ld, %s has forward %d and back %d links\n",node->number,buffer,node->next_len,node->prev_len); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_assembly_untangler.dy:141:22: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 141 | fprintf(stderr,"Will attempt untangle starting at %ld to %ld\n",node->prev[i]->prev->number,node->number); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_assembly_untangler.dy:141:22: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 141 | fprintf(stderr,"Will attempt untangle starting at %ld to %ld\n",node->prev[i]->prev->number,node->number); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_assembly_untangler.dy:157:22: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 157 | fprintf(stderr,"RESOLVED: Node %ld [%s] Fully untangled now...\n",node->number,buffer); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_assembly_untangler.dy:159:22: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 159 | fprintf(stderr,"UNRESOLVED: Node %ld [%s] still tangled...\n",node->number,buffer); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_assembly_untangler.dy:101:22: warning: variable 'link_set' set but not used [-Wunused-but-set-variable] 101 | KmerAssemblyLink * link_set[1024]; | ^~~~~~~~ kmer_assembly_untangler.dy: In function 'Wise2_old_attempt_forward_untangle_KmerAssembly': kmer_assembly_untangler.dy:444:20: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 444 | fprintf(stderr,"looking at node %ld with path length %d, next length %d depth %d\n",current->next->number,pathlen,current->next->next_len,current->sequence_label_len); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_assembly_untangler.dy:568:82: warning: passing argument 4 of 'Wise2_lift_backward_tangled_tail' from incompatible pointer type [-Wincompatible-pointer-types] 568 | lift_backward_tangled_tail(kai,newpath->stack[newpath->stack_len-1],path,transferred_label,transferred_pos,transferred_len); | ^~~~~~~~~~~~~~~~~ | | | long int * In file included from kmer_assembly_untangler.c:4: kmer_assembly_untangler.h:174:116: note: expected 'int *' but argument is of type 'long int *' 174 | void Wise2_lift_backward_tangled_tail(KmerAssemblyIndex * kai,KmerAssemblyLink * new,KmerAssemblyPath * tail,int * start_label,SinglePosSequence ** positions,int label_len); | ~~~~~~^~~~~~~~~~~ kmer_assembly_untangler.dy: In function 'Wise2_lift_forward_tangled_KmerAssemblyPath': kmer_assembly_untangler.dy:746:20: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 746 | fprintf(stderr,"Moving stack position %d, depth %d, transfer %d, between %ld [%s] and %ld [%s]\n",i,kap->stack[i]->sequence_label_len,label_len,kap->stack[i]->prev->number,back,kap->stack[i]->next->number,forw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_assembly_untangler.dy:746:20: warning: format '%ld' expects argument of type 'long int', but argument 8 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 746 | fprintf(stderr,"Moving stack position %d, depth %d, transfer %d, between %ld [%s] and %ld [%s]\n",i,kap->stack[i]->sequence_label_len,label_len,kap->stack[i]->prev->number,back,kap->stack[i]->next->number,forw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_assembly_untangler.dy: In function 'Wise2_attempt_forward_untangle_KmerAssembly': kmer_assembly_untangler.h:102:31: warning: 'newpath' may be used uninitialized [-Wmaybe-uninitialized] 102 | #define free_KmerAssemblyPath Wise2_free_KmerAssemblyPath kmer_assembly_untangler.dy:363:22: note: 'newpath' was declared here 363 | KmerAssemblyPath * newpath; | ^~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models kmer_assembly_contig.c kmer_assembly_contig.dy: In function 'Wise2_KmerAssemblyContigSet_from_KmerAssemblyIndex': kmer_assembly_contig.dy:66:27: warning: unused variable 'final' [-Wunused-variable] 66 | KmerAssemblyContigSet * final; | ^~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models kmer_assembly_error.c kmer_assembly_error.dy: In function 'Wise2_mark_tangles_KmerAssembly': kmer_assembly_error.dy:93:22: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 93 | fprintf(stderr,"Marking node (%ld) [%s] as next tangled\n",node->number,buffer); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_assembly_error.dy:105:22: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'kmer_t' {aka 'long long int'} [-Wformat=] 105 | fprintf(stderr,"Marking node (%ld) [%s] as prev tangled\n",node->number,buffer); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~ | | | kmer_t {aka long long int} kmer_assembly_error.dy: In function 'Wise2_attempt_resolve_forward_error_KmerAssembly': kmer_assembly_error.dy:208:8: warning: unused variable 'next' [-Wunused-variable] 208 | char next[256]; | ^~~~ kmer_assembly_error.dy: In function 'Wise2_extend_indel_path_KmerAssembly': kmer_assembly_error.dy:351:24: warning: format '%d' expects argument of type 'int', but argument 4 has type 'int *' [-Wformat=] 351 | fprintf(stderr,"in considering indel (%d, path %d), real (%c) and error (%c) do not agree at position %d,%d\n",delete_length,current_path,real->base,error->base,real_pos,error_pos); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~ | | | int * gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models assembly.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models assembly_stream_interface.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models assembly_stream_fasta.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models assembly_sanger_project.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models assembly_stream_cons.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -I../models compressed_protein_index.c compressed_protein_index.dy: In function 'Wise2_add_direct_number_CompressedProteinIndex': compressed_protein_index.dy:223:10: warning: returning 'void *' from a function with return type 'boolean' {aka 'int'} makes integer from pointer without a cast [-Wint-conversion] 223 | return NULL; | ^~~~ make[1]: Leaving directory '/builddir/build/BUILD/wise2.4.1/src/dnaindex' (cd network ; make CC="gcc" CFLAGS="-c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L" all ) make[1]: Entering directory '/builddir/build/BUILD/wise2.4.1/src/network' gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../socket -I../dynlibsrc -I../dnaindex wise_proteinindex_server.c wise_proteinindex_server.c: In function 'main': wise_proteinindex_server.c:93:10: warning: unused variable 'temp' [-Wunused-variable] 93 | char * temp; | ^~~~ wise_proteinindex_server.c:91:10: warning: unused variable 'ior_file' [-Wunused-variable] 91 | char * ior_file; | ^~~~~~~~ wise_proteinindex_server.c:84:7: warning: unused variable 'count' [-Wunused-variable] 84 | int count = 0; | ^~~~~ wise_proteinindex_server.c:76:7: warning: unused variable 'ret' [-Wunused-variable] 76 | int ret; | ^~~ wise_proteinindex_server.c:75:14: warning: unused variable 'seq' [-Wunused-variable] 75 | Sequence * seq; | ^~~ wise_proteinindex_server.c:70:7: warning: unused variable 'i' [-Wunused-variable] 70 | int i; | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../socket -I../dynlibsrc -I../dnaindex net_hspscan.c gcc -g -o scanwise_server wise_proteinindex_server.o net_hspscan.o ../dnaindex/compressed_protein_index.o ../dnaindex/kmer_index_interface.o ../dnaindex/singleseqspace.o ../dnaindex/kmer_direct.o -ldyna_glib -ldyna -lwisesocket -lwisebase -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -g -L../base/ -L../socket -L../dynlibsrc -L../dnaindex -lm `pkg-config --libs glib-2.0` -lpthread gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../socket -I../dynlibsrc -I../dnaindex client_multihspscan.c client_multihspscan.dy: In function 'Wise2_new_multiclient_HSPScanInterface': client_multihspscan.dy:128:1: warning: control reaches end of non-void function [-Wreturn-type] 128 | } | ^ make[1]: Leaving directory '/builddir/build/BUILD/wise2.4.1/src/network' (cd models ; make CC="gcc" CFLAGS="-c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L" EXTRALIBS="-lm" HMMER_DEFINE="HMMER_INTERNAL" HMMER_INCLUDE="../HMMer2/" HMMER_LIBS="../HMMer2/" all ) make[1]: Entering directory '/builddir/build/BUILD/wise2.4.1/src/models' gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ dnal.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ dnaalign.c dnaalign.c: In function 'Wise2_calculate_shatter_DnaAlign': dnaalign.c:336:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 336 | int j; | ^~ dnaalign.c:335:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 335 | int i; | ^~ dnaalign.c:333:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 333 | boolean calculate_shatter_DnaAlign(DnaAlign * mat,DPEnvelope * dpenv) | ^~~~ dnaalign.c: In function 'Wise2_serial_search_DnaAlign': dnaalign.c:621:9: warning: unused variable 'db_status' [-Wunused-variable] 621 | * | ^ dnaalign.c: In function 'Wise2_PackAln_bestmemory_DnaAlign': dnaalign.c:900:19: warning: unused variable 'de' [-Wunused-variable] 900 | */ | ^ dnaalign.c: In function 'Wise2_max_special_strip_DnaAlign': dnaalign.c:1799:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 1799 | * Return [UNKN ] Undocumented return value [int] | ^~~~~~ dnaalign.c:1798:9: warning: unused variable 'temp' [-Wunused-variable] 1798 | * | ^ dnaalign.c: In function 'Wise2_PackAln_bestmemory_DnaAlign': dnaalign.c:961:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 961 | } | ^ dnaalign.c:899:15: note: 'out' was declared here 899 | * | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ seqaligndisplay.c gcc -o dnal dnal.o dnaalign.o seqaligndisplay.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` -ldyna_glib -ldyna -lwisebase -lm gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ psw.c In file included from /usr/include/stdio.h:906, from ../base/wisebase.h:6, from ../dynlibsrc/packaln.h:7, from ../dynlibsrc/dyna.h:12, from proteinsw.h:6, from sw_wrap.h:6, from psw.c:8: In function 'fprintf', inlined from 'main' at psw.c:241:5: /usr/include/bits/stdio2.h:79:10: warning: 'qend' may be used uninitialized [-Wmaybe-uninitialized] 79 | return __fprintf_chk (__stream, __USE_FORTIFY_LEVEL - 1, __fmt, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ psw.c: In function 'main': psw.c:60:7: note: 'qend' was declared here 60 | int qend; | ^~~~ In function 'fprintf', inlined from 'main' at psw.c:241:5: /usr/include/bits/stdio2.h:79:10: warning: 'tend' may be used uninitialized [-Wmaybe-uninitialized] 79 | return __fprintf_chk (__stream, __USE_FORTIFY_LEVEL - 1, __fmt, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ psw.c: In function 'main': psw.c:62:7: note: 'tend' was declared here 62 | int tend; | ^~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ proteinsw.c proteinsw.c: In function 'Wise2_calculate_shatter_ProteinSW': proteinsw.c:124:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 124 | int lenj; | ^~~ proteinsw.c:123:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 123 | int leni; | ^~~ proteinsw.c:121:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 121 | int k; | ^~ proteinsw.c: In function 'Wise2_PackAln_bestmemory_ProteinSW': proteinsw.c:824:19: warning: unused variable 'de' [-Wunused-variable] 824 | ProteinSW * mat; | ^~ proteinsw.c: In function 'Wise2_max_special_strip_ProteinSW': proteinsw.c:1678:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 1678 | { | ^ proteinsw.c:1677:9: warning: unused variable 'temp' [-Wunused-variable] 1677 | int max_special_strip_ProteinSW(ProteinSW * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ proteinsw.c: In function 'Wise2_PackAln_bestmemory_ProteinSW': proteinsw.c:885:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 885 | | ^ proteinsw.c:823:15: note: 'out' was declared here 823 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ sw_wrap.c sw_wrap.dy: In function 'Wise2_Hscore_from_ProteinSW': sw_wrap.dy:355:23: warning: variable 'ret' set but not used [-Wunused-but-set-variable] 355 | Search_Return_Type ret; | ^~~ sw_wrap.dy: In function 'Wise2_Hscore_from_ProteinABC': sw_wrap.dy:407:23: warning: variable 'ret' set but not used [-Wunused-but-set-variable] 407 | Search_Return_Type ret; | ^~~ sw_wrap.dy: In function 'Wise2_Hscore_from_ProteinBA': sw_wrap.dy:460:23: warning: variable 'ret' set but not used [-Wunused-but-set-variable] 460 | Search_Return_Type ret; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ abc.c abc.c: In function 'Wise2_calculate_shatter_abc': abc.c:123:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 123 | int lenj; | ^~~ abc.c:122:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 122 | int leni; | ^~~ abc.c:120:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 120 | int k; | ^~ abc.c: In function 'Wise2_PackAln_bestmemory_abc': abc.c:822:19: warning: unused variable 'de' [-Wunused-variable] 822 | abc * mat; | ^ abc.c: In function 'Wise2_max_special_strip_abc': abc.c:1687:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 1687 | { | ^ abc.c:1686:9: warning: unused variable 'temp' [-Wunused-variable] 1686 | int max_special_strip_abc(abc * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ abc.c: In function 'Wise2_PackAln_bestmemory_abc': abc.c:883:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 883 | | ^ abc.c:821:15: note: 'out' was declared here 821 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ pba.c pba.c: In function 'Wise2_calculate_shatter_ProteinBlockAligner': pba.c:126:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 126 | int lenj; | ^~~ pba.c:125:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 125 | int leni; | ^~~ pba.c:123:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 123 | int k; | ^~ pba.c: In function 'Wise2_PackAln_bestmemory_ProteinBlockAligner': pba.c:929:19: warning: unused variable 'de' [-Wunused-variable] 929 | ProteinBlockAligner * mat; | ^~ pba.c: In function 'Wise2_max_special_strip_ProteinBlockAligner': pba.c:1884:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 1884 | { | ^ pba.c:1883:9: warning: unused variable 'temp' [-Wunused-variable] 1883 | int max_special_strip_ProteinBlockAligner(ProteinBlockAligner * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ pba.c: In function 'Wise2_PackAln_bestmemory_ProteinBlockAligner': pba.c:990:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 990 | | ^ pba.c:928:15: note: 'out' was declared here 928 | long long total; | ^~~ gcc -o psw psw.o sw_wrap.o seqaligndisplay.o proteinsw.o abc.o pba.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` -ldyna_glib -ldyna -lwisebase -lm gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ pswdb.c gcc -o pswdb pswdb.o sw_wrap.o seqaligndisplay.o proteinsw.o abc.o pba.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` -ldyna_glib -ldyna -lwisebase -lm gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ dbac.c dbac.c: In function 'make_SeqAlign_from_align': dbac.c:413:32: warning: format '%d' expects argument of type 'int', but argument 4 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 413 | fprintf(stderr,"Got %d with %d vs %d\n",i,strlen(seq),one->len); | ~^ ~~~~~~~~~~~ | | | | int size_t {aka long unsigned int} | %ld dbac.c: In function 'main': dbac.c:463:7: warning: unused variable 'score' [-Wunused-variable] 463 | int score; | ^~~~~ dbac.c:460:19: warning: unused variable 'dmat' [-Wunused-variable] 460 | DnaMatchBlock * dmat; | ^~~~ dbac.c: In function 'showPFF': dbac.c:259:38: warning: 'currMatch' may be used uninitialized [-Wmaybe-uninitialized] 259 | *( ((1-currMatch)/3)/0.25 )))/log(2); | ~~^~~~~~~~~~~ dbac.c:169:10: note: 'currMatch' was declared here 169 | double currMatch; | ^~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ dba.c dba.c: In function 'Wise2_calculate_shatter_DnaMatchBlock': dba.c:127:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 127 | int lenj; | ^~~ dba.c:126:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 126 | int leni; | ^~~ dba.c:124:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 124 | int k; | ^~ dba.c: In function 'Wise2_serial_search_DnaMatchBlock': dba.c:467:9: warning: unused variable 'db_status' [-Wunused-variable] 467 | Search_Return_Type serial_search_DnaMatchBlock(Hscore * out,ComplexSequence* query,ComplexSequence* target ,DnaMatrix* comp65,DnaMatrix* comp75,DnaMatrix* comp85,DnaMatrix* comp95,Score g,Score u,Score v,Score s,Score b) | ^~~~~~~~~ dba.c: In function 'Wise2_PackAln_bestmemory_DnaMatchBlock': dba.c:801:19: warning: unused variable 'de' [-Wunused-variable] 801 | DnaMatchBlock * mat; | ^~ dba.c: In function 'Wise2_max_special_strip_DnaMatchBlock': dba.c:1943:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 1943 | { | ^ dba.c:1942:9: warning: unused variable 'temp' [-Wunused-variable] 1942 | int max_special_strip_DnaMatchBlock(DnaMatchBlock * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ dba.c: In function 'Wise2_PackAln_bestmemory_DnaMatchBlock': dba.c:862:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 862 | | ^ dba.c:800:15: note: 'out' was declared here 800 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ slimdba.c slimdba.c: In function 'Wise2_calculate_shatter_SlimDnaMatchBlock': slimdba.c:124:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 124 | int lenj; | ^~~ slimdba.c:123:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 123 | int leni; | ^~~ slimdba.c:121:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 121 | int k; | ^~ slimdba.c: In function 'Wise2_serial_search_SlimDnaMatchBlock': slimdba.c:359:9: warning: unused variable 'db_status' [-Wunused-variable] 359 | Search_Return_Type serial_search_SlimDnaMatchBlock(Hscore * out,ComplexSequence* query,ComplexSequence* target ,DnaMatrix* comp65,Score g,Score u,Score v,Score s,Score b) | ^~~~~~~~~ slimdba.c: In function 'Wise2_PackAln_bestmemory_SlimDnaMatchBlock': slimdba.c:588:19: warning: unused variable 'de' [-Wunused-variable] 588 | SlimDnaMatchBlock * mat; | ^~ slimdba.c: In function 'Wise2_max_special_strip_SlimDnaMatchBlock': slimdba.c:1469:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 1469 | { | ^ slimdba.c:1468:9: warning: unused variable 'temp' [-Wunused-variable] 1468 | int max_special_strip_SlimDnaMatchBlock(SlimDnaMatchBlock * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ slimdba.c: In function 'Wise2_PackAln_bestmemory_SlimDnaMatchBlock': slimdba.c:649:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 649 | | ^ slimdba.c:587:15: note: 'out' was declared here 587 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ bigdba.c bigdba.c: In function 'Wise2_calculate_shatter_BigDnaMatchBlock': bigdba.c:128:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 128 | int lenj; | ^~~ bigdba.c:127:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 127 | int leni; | ^~~ bigdba.c:125:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 125 | int k; | ^~ bigdba.c: In function 'Wise2_serial_search_BigDnaMatchBlock': bigdba.c:507:9: warning: unused variable 'db_status' [-Wunused-variable] 507 | Search_Return_Type serial_search_BigDnaMatchBlock(Hscore * out,ComplexSequence* query,ComplexSequence* target ,DnaMatrix* comp55,DnaMatrix* comp65,DnaMatrix* comp75,DnaMatrix* comp85,DnaMatrix* comp95,Score g,Score g65,Score g55,Score u,Score v,Score s,Score b) | ^~~~~~~~~ bigdba.c: In function 'Wise2_PackAln_bestmemory_BigDnaMatchBlock': bigdba.c:880:19: warning: unused variable 'de' [-Wunused-variable] 880 | BigDnaMatchBlock * mat; | ^~ bigdba.c: In function 'Wise2_max_special_strip_BigDnaMatchBlock': bigdba.c:2117:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 2117 | { | ^ bigdba.c:2116:9: warning: unused variable 'temp' [-Wunused-variable] 2116 | int max_special_strip_BigDnaMatchBlock(BigDnaMatchBlock * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ bigdba.c: In function 'Wise2_PackAln_bestmemory_BigDnaMatchBlock': bigdba.c:941:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 941 | | ^ bigdba.c:879:15: note: 'out' was declared here 879 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ dbadisplay.c dbadisplay.dy: In function 'Wise2_show_pretty_dba_align_btcanvas': dbadisplay.dy:71:11: warning: variable 'is_reversed' set but not used [-Wunused-but-set-variable] 71 | boolean is_reversed; | ^~~~~~~~~~~ dbadisplay.dy:278:34: warning: 'end_alc' may be used uninitialized [-Wmaybe-uninitialized] 278 | sprintf(buffer,"%d",end_alc->alu[0]->start+1); | ~~~~~~~^~~~~ dbadisplay.dy:64:15: note: 'end_alc' was declared here 64 | AlnColumn * end_alc; | ^~~~~~~ gcc -o dba dbac.o dba.o slimdba.o bigdba.o dbadisplay.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` -ldyna_glib -ldyna -lwisebase -lm gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L estwise.c -I../base/ -I../dynlibsrc/ -I../HMMer2/ -I. gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ geneparser21.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ geneparameter.c geneparameter.dy: In function 'Wise2_GeneParameter21_from_GeneModel': geneparameter.dy:132:25: warning: unused variable 'cse' [-Wunused-variable] 132 | ComplexSequenceEval * cse; | ^~~ geneparameter.dy:131:25: warning: unused variable 'rmds' [-Wunused-variable] 131 | RandomModelDNAScore * rmds; | ^~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genestats.c genestats.dy: In function 'Wise2_get_genestat_emission': genestats.dy:753:10: warning: unused variable 'd' [-Wunused-variable] 753 | double d; | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genewisehsp.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ geneutil.c geneutil.dy: In function 'Wise2_add_Genes_to_GenomicRegion_new': geneutil.dy:92:15: warning: unused variable 'intron_start' [-Wunused-variable] 92 | AlnColumn * intron_start; | ^~~~~~~~~~~~ geneutil.dy:82:7: warning: unused variable 'count' [-Wunused-variable] 82 | int count = 0; | ^~~~~ geneutil.dy: In function 'Wise2_Gene_from_AlnColumn_new': geneutil.dy:504:16: warning: 'ex' may be used uninitialized [-Wmaybe-uninitialized] 504 | out->end = ex->end + out->start; | ~~^~~~~ geneutil.dy:367:10: note: 'ex' was declared here 367 | Exon * ex; | ^~ geneutil.dy:446:20: warning: 'prev' may be used uninitialized [-Wmaybe-uninitialized] 446 | exon_end = prev->alu[1]->end +1 - out->start; | ~~~~^~~~~ geneutil.dy:381:15: note: 'prev' was declared here 381 | AlnColumn * prev; | ^~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ geneoutput.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ threestatemodel.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genefrequency.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ splicesitemodeler.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genewise4.c genewise4.c: In function 'Wise2_calculate_shatter_GeneWise4': genewise4.c:126:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 126 | int lenj; | ^~~ genewise4.c:125:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 125 | int leni; | ^~~ genewise4.c:123:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 123 | int k; | ^~ genewise4.c: In function 'Wise2_PackAln_bestmemory_GeneWise4': genewise4.c:1068:19: warning: unused variable 'de' [-Wunused-variable] 1068 | GeneWise4 * mat; | ^~ genewise4.c: In function 'Wise2_max_special_strip_GeneWise4': genewise4.c:2217:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 2217 | { | ^ genewise4.c:2216:9: warning: unused variable 'temp' [-Wunused-variable] 2216 | int max_special_strip_GeneWise4(GeneWise4 * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ genewise4.c: In function 'Wise2_PackAln_bestmemory_GeneWise4': genewise4.c:1129:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 1129 | | ^ genewise4.c:1067:15: note: 'out' was declared here 1067 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genewise6.c genewise6.c: In function 'Wise2_calculate_shatter_GeneWise6': genewise6.c:128:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 128 | int lenj; | ^~~ genewise6.c:127:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 127 | int leni; | ^~~ genewise6.c:125:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 125 | int k; | ^~ genewise6.c: In function 'Wise2_PackAln_bestmemory_GeneWise6': genewise6.c:1180:19: warning: unused variable 'de' [-Wunused-variable] 1180 | GeneWise6 * mat; | ^~ genewise6.c: In function 'Wise2_max_special_strip_GeneWise6': genewise6.c:2417:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 2417 | { | ^ genewise6.c:2416:9: warning: unused variable 'temp' [-Wunused-variable] 2416 | int max_special_strip_GeneWise6(GeneWise6 * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ genewise6.c: In function 'Wise2_PackAln_bestmemory_GeneWise6': genewise6.c:1241:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 1241 | | ^ genewise6.c:1179:15: note: 'out' was declared here 1179 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genestretch6.c genestretch6.c: In function 'Wise2_calculate_shatter_GeneStretch6': genestretch6.c:130:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 130 | int lenj; | ^~~ genestretch6.c:129:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 129 | int leni; | ^~~ genestretch6.c:127:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 127 | int k; | ^~ genestretch6.c: In function 'Wise2_PackAln_bestmemory_GeneStretch6': genestretch6.c:1339:19: warning: unused variable 'de' [-Wunused-variable] 1339 | GeneStretch6 * mat; | ^~ genestretch6.c: In function 'Wise2_PackAln_calculate_Small_GeneStretch6': genestretch6.c:1839:19: warning: unused variable 'pau' [-Wunused-variable] 1839 | int score; | ^ genestretch6.c: In function 'Wise2_PackAln_bestmemory_GeneStretch6': genestretch6.c:1400:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 1400 | | ^ genestretch6.c:1338:15: note: 'out' was declared here 1338 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genewise21.c genewise21.c: In function 'Wise2_calculate_shatter_GeneWise21': genewise21.c:154:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 154 | int lenj; | ^~~ genewise21.c:153:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 153 | int leni; | ^~~ genewise21.c:151:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 151 | int k; | ^~ genewise21.c: In function 'Wise2_PackAln_bestmemory_GeneWise21': genewise21.c:2606:19: warning: unused variable 'de' [-Wunused-variable] 2606 | GeneWise21 * mat; | ^~ genewise21.c: In function 'Wise2_PackAln_calculate_Small_GeneWise21': genewise21.c:3507:19: warning: unused variable 'pau' [-Wunused-variable] 3507 | int score; | ^ genewise21.c: In function 'Wise2_PackAln_bestmemory_GeneWise21': genewise21.c:2667:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 2667 | | ^ genewise21.c:2605:15: note: 'out' was declared here 2605 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ geneloop21.c geneloop21.c: In function 'Wise2_calculate_shatter_GeneLoop21': geneloop21.c:147:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 147 | int lenj; | ^~~ geneloop21.c:146:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 146 | int leni; | ^~~ geneloop21.c:144:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 144 | int k; | ^~ geneloop21.c: In function 'Wise2_PackAln_bestmemory_GeneLoop21': geneloop21.c:2280:19: warning: unused variable 'de' [-Wunused-variable] 2280 | GeneLoop21 * mat; | ^~ geneloop21.c: In function 'Wise2_PackAln_calculate_Small_GeneLoop21': geneloop21.c:3093:19: warning: unused variable 'pau' [-Wunused-variable] 3093 | int score; | ^ geneloop21.c: In function 'Wise2_PackAln_bestmemory_GeneLoop21': geneloop21.c:2341:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 2341 | | ^ geneloop21.c:2279:15: note: 'out' was declared here 2279 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ geneloop6.c geneloop6.c: In function 'Wise2_calculate_shatter_GeneLoop6': geneloop6.c:129:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 129 | int lenj; | ^~~ geneloop6.c:128:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 128 | int leni; | ^~~ geneloop6.c:126:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 126 | int k; | ^~ geneloop6.c: In function 'Wise2_PackAln_bestmemory_GeneLoop6': geneloop6.c:1268:19: warning: unused variable 'de' [-Wunused-variable] 1268 | GeneLoop6 * mat; | ^~ geneloop6.c: In function 'Wise2_PackAln_calculate_Small_GeneLoop6': geneloop6.c:1742:19: warning: unused variable 'pau' [-Wunused-variable] 1742 | int score; | ^ geneloop6.c: In function 'Wise2_PackAln_bestmemory_GeneLoop6': geneloop6.c:1329:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 1329 | | ^ geneloop6.c:1267:15: note: 'out' was declared here 1267 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genephase6.c genephase6.c: In function 'Wise2_calculate_shatter_GenePhase6': genephase6.c:215:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 215 | int lenj; | ^~~ genephase6.c:214:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 214 | int leni; | ^~~ genephase6.c:212:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 212 | int k; | ^~ genephase6.c: In function 'Wise2_PackAln_bestmemory_GenePhase6': genephase6.c:1492:19: warning: unused variable 'de' [-Wunused-variable] 1492 | GenePhase6 * mat; | ^~ genephase6.c: In function 'Wise2_PackAln_calculate_Small_GenePhase6': genephase6.c:2052:19: warning: unused variable 'pau' [-Wunused-variable] 2052 | int score; | ^ genephase6.c: In function 'Wise2_thread_loop_GenePhase6': genephase6.c:873:1: warning: control reaches end of non-void function [-Wreturn-type] 873 | { | ^ genephase6.c: In function 'Wise2_PackAln_bestmemory_GenePhase6': genephase6.c:1553:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 1553 | | ^ genephase6.c:1491:15: note: 'out' was declared here 1491 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ gwlite.c gwlite.c: In function 'Wise2_calculate_shatter_GeneLiteModel': gwlite.c:127:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 127 | int lenj; | ^~~ gwlite.c:126:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 126 | int leni; | ^~~ gwlite.c:124:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 124 | int k; | ^~ gwlite.c: In function 'Wise2_PackAln_bestmemory_GeneLiteModel': gwlite.c:1117:19: warning: unused variable 'de' [-Wunused-variable] 1117 | GeneLiteModel * mat; | ^~ gwlite.c: In function 'Wise2_max_special_strip_GeneLiteModel': gwlite.c:2294:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 2294 | { | ^ gwlite.c:2293:9: warning: unused variable 'temp' [-Wunused-variable] 2293 | int max_special_strip_GeneLiteModel(GeneLiteModel * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ gwlite.c: In function 'Wise2_PackAln_bestmemory_GeneLiteModel': gwlite.c:1178:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 1178 | | ^ gwlite.c:1116:15: note: 'out' was declared here 1116 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ gwlitemodel.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ gwrap.c gwrap.dy: In function 'Wise2_Hscore_from_TSM_genewise': gwrap.dy:527:25: warning: unused variable 'tempcse' [-Wunused-variable] 527 | ComplexSequenceEval * tempcse; | ^~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ matchsum.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estwrap.c estwrap.dy: In function 'Wise2_Hscore_from_TSM_estwise': estwrap.dy:269:22: warning: variable 'ret' set but not used [-Wunused-but-set-variable] 269 | Search_Return_Type ret; | ^~~ estwrap.dy: In function 'Wise2_AlnBlock_from_TSM_estwise_wrap': estwrap.dy:244:10: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 244 | return out; | ^~~ estwrap.dy:138:14: note: 'out' was declared here 138 | AlnBlock * out; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genewisemodel.c genewisemodel.dy: In function 'Wise2_pack_GeneWiseScore': genewisemodel.dy:114:10: warning: 'out' is used uninitialized [-Wuninitialized] 114 | return out; | ^~~ genewisemodel.dy:112:10: note: 'out' was declared here 112 | char * out; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ phasemodel.c phasemodel.dy: In function 'Wise2_read_ProteinIntronList': phasemodel.dy:65:10: warning: unused variable 'run2' [-Wunused-variable] 65 | char * run2; | ^~~~ phasemodel.dy:64:10: warning: unused variable 'run1' [-Wunused-variable] 64 | char * run1; | ^~~~ phasemodel.dy: In function 'Wise2_read_fasta_PhasedProtein': phasemodel.dy:233:7: warning: unused variable 'j' [-Wunused-variable] 233 | int j; | ^ phasemodel.dy:231:14: warning: unused variable 'input' [-Wunused-variable] 231 | Sequence * input; | ^~~~~ phasemodel.dy:241:3: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 241 | fgets(name,10000,ifp); | ^~~~~~~~~~~~~~~~~~~~~ phasemodel.dy:241:3: warning: 'fgets' writing 10000 bytes into a region of size 2000 overflows the destination [-Wstringop-overflow=] 241 | fgets(name,10000,ifp); | ^~~~~~~~~~~~~~~~~~~~~ phasemodel.dy:235:8: note: destination object 'name' of size 2000 235 | char name[2000]; | ^~~~ In file included from /usr/include/stdio.h:906, from ../base/wisebase.h:6, from ../dynlibsrc/probability.h:7, from geneparser21.h:6, from genewisemodel.h:6, from phasemodel.h:6, from phasemodel.c:4: /usr/include/bits/stdio2.h:209:1: note: in a call to function 'fgets' declared with attribute 'access (write_only, 1, 2)' 209 | fgets (char *__restrict __s, int __n, FILE *__restrict __stream) | ^~~~~ In function 'fgets', inlined from 'Wise2_read_fasta_PhasedProtein' at phasemodel.dy:241:3: /usr/include/bits/stdio2.h:215:12: warning: call to '*__fgets_chk' declared with attribute warning: fgets called with bigger size than length of destination buffer [-Wattribute-warning] 215 | return __fgets_chk_warn (__s, sz, __n, __stream); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ cdparser.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genedisplay.c genedisplay.dy: In function 'Wise2_write_intron_desc': genedisplay.dy:493:20: warning: too many arguments for format [-Wformat-extra-args] 493 | sprintf(buffer," Intron ??? ",in_number); | ^~~~~~~~~~~~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estwise3.c estwise3.c: In function 'Wise2_calculate_shatter_EstWise3': estwise3.c:124:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 124 | int lenj; | ^~~ estwise3.c:123:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 123 | int leni; | ^~~ estwise3.c:121:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 121 | int k; | ^~ estwise3.c: In function 'Wise2_PackAln_bestmemory_EstWise3': estwise3.c:1144:19: warning: unused variable 'de' [-Wunused-variable] 1144 | EstWise3 * mat; | ^ estwise3.c: In function 'Wise2_max_special_strip_EstWise3': estwise3.c:2402:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 2402 | { | ^ estwise3.c:2401:9: warning: unused variable 'temp' [-Wunused-variable] 2401 | int max_special_strip_EstWise3(EstWise3 * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ estwise3.c: In function 'Wise2_PackAln_bestmemory_EstWise3': estwise3.c:1205:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 1205 | | ^ estwise3.c:1143:15: note: 'out' was declared here 1143 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estslim3.c estslim3.c: In function 'Wise2_calculate_shatter_EstSlim3': estslim3.c:124:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 124 | int lenj; | ^~~ estslim3.c:123:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 123 | int leni; | ^~~ estslim3.c:121:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 121 | int k; | ^~ estslim3.c: In function 'Wise2_PackAln_bestmemory_EstSlim3': estslim3.c:936:19: warning: unused variable 'de' [-Wunused-variable] 936 | EstSlim3 * mat; | ^ estslim3.c: In function 'Wise2_max_special_strip_EstSlim3': estslim3.c:1894:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 1894 | { | ^ estslim3.c:1893:9: warning: unused variable 'temp' [-Wunused-variable] 1893 | int max_special_strip_EstSlim3(EstSlim3 * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ estslim3.c: In function 'Wise2_PackAln_bestmemory_EstSlim3': estslim3.c:997:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 997 | | ^ estslim3.c:935:15: note: 'out' was declared here 935 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estloop3.c estloop3.c: In function 'Wise2_calculate_shatter_EstLoop3': estloop3.c:125:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 125 | int lenj; | ^~~ estloop3.c:124:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 124 | int leni; | ^~~ estloop3.c:122:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 122 | int k; | ^~ estloop3.c: In function 'Wise2_PackAln_bestmemory_EstLoop3': estloop3.c:1312:19: warning: unused variable 'de' [-Wunused-variable] 1312 | EstLoop3 * mat; | ^ estloop3.c: In function 'Wise2_PackAln_calculate_Small_EstLoop3': estloop3.c:1809:19: warning: unused variable 'pau' [-Wunused-variable] 1809 | int score; | ^ estloop3.c: In function 'Wise2_PackAln_bestmemory_EstLoop3': estloop3.c:1373:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 1373 | | ^ estloop3.c:1311:15: note: 'out' was declared here 1311 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estfrag3.c estfrag3.c: In function 'Wise2_calculate_shatter_EstFrag3': estfrag3.c:124:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 124 | int lenj; | ^~~ estfrag3.c:123:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 123 | int leni; | ^~~ estfrag3.c:121:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 121 | int k; | ^~ estfrag3.c: In function 'Wise2_PackAln_bestmemory_EstFrag3': estfrag3.c:965:19: warning: unused variable 'de' [-Wunused-variable] 965 | EstFrag3 * mat; | ^ estfrag3.c: In function 'Wise2_max_special_strip_EstFrag3': estfrag3.c:2242:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 2242 | { | ^ estfrag3.c:2241:9: warning: unused variable 'temp' [-Wunused-variable] 2241 | int max_special_strip_EstFrag3(EstFrag3 * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ estfrag3.c: In function 'Wise2_PackAln_bestmemory_EstFrag3': estfrag3.c:1026:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 1026 | | ^ estfrag3.c:964:15: note: 'out' was declared here 964 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estslimloop.c estslimloop.c: In function 'Wise2_calculate_shatter_EstSlimLoop3': estslimloop.c:125:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 125 | int lenj; | ^~~ estslimloop.c:124:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 124 | int leni; | ^~~ estslimloop.c:122:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 122 | int k; | ^~ estslimloop.c: In function 'Wise2_PackAln_bestmemory_EstSlimLoop3': estslimloop.c:1114:19: warning: unused variable 'de' [-Wunused-variable] 1114 | EstSlimLoop3 * mat; | ^~ estslimloop.c: In function 'Wise2_PackAln_calculate_Small_EstSlimLoop3': estslimloop.c:1535:19: warning: unused variable 'pau' [-Wunused-variable] 1535 | int score; | ^ estslimloop.c: In function 'Wise2_PackAln_bestmemory_EstSlimLoop3': estslimloop.c:1175:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 1175 | | ^ estslimloop.c:1113:15: note: 'out' was declared here 1113 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ gwquickdb.c gwquickdb.dy: In function 'Wise2_init_GeneWiseQuickDB': gwquickdb.dy:46:1: warning: control reaches end of non-void function [-Wreturn-type] 46 | } | ^ gwquickdb.dy: In function 'Wise2_reload_GeneWiseQuickDB': gwquickdb.dy:65:1: warning: control reaches end of non-void function [-Wreturn-type] 65 | } | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ threestatedb.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ pfamhmmer1db.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ pwmdna.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../HMMer2/ -DHMMER_INTERNAL -I../base/ -I../dynlibsrc/ wise2xhmmer2.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genewisemodeldb.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ seqhit.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ standardout.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ geneparser4.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estquick3.c estquick3.c: In function 'Wise2_calculate_shatter_EstQuick3': estquick3.c:124:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 124 | int lenj; | ^~~ estquick3.c:123:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 123 | int leni; | ^~~ estquick3.c:121:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 121 | int k; | ^~ estquick3.c: In function 'Wise2_PackAln_bestmemory_EstQuick3': estquick3.c:860:19: warning: unused variable 'de' [-Wunused-variable] 860 | EstQuick3 * mat; | ^~ estquick3.c: In function 'Wise2_max_special_strip_EstQuick3': estquick3.c:1766:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 1766 | { | ^ estquick3.c:1765:9: warning: unused variable 'temp' [-Wunused-variable] 1765 | int max_special_strip_EstQuick3(EstQuick3 * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ estquick3.c: In function 'Wise2_PackAln_bestmemory_EstQuick3': estquick3.c:921:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 921 | | ^ estquick3.c:859:15: note: 'out' was declared here 859 | long long total; | ^~~ gcc -g -o estwise estwise.o geneparser21.o geneparameter.o genestats.o genewisehsp.o geneutil.o geneoutput.o threestatemodel.o genefrequency.o splicesitemodeler.o genewise4.o genewise6.o genestretch6.o genewise21.o geneloop21.o geneloop6.o genephase6.o gwlite.o gwlitemodel.o gwrap.o matchsum.o estwrap.o genewisemodel.o phasemodel.o cdparser.o genedisplay.o estwise3.o estslim3.o estloop3.o estfrag3.o estslimloop.o gwquickdb.o threestatedb.o pfamhmmer1db.o pwmdna.o wise2xhmmer2.o genewisemodeldb.o seqhit.o standardout.o geneparser4.o sw_wrap.o abc.o pba.o seqaligndisplay.o dbadisplay.o proteinsw.o estquick3.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` -lhmmer -ldyna_glib -ldyna -lwisebase -lm -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L genewise.c -I../base/ -I../dynlibsrc/ -I../HMMer2/ -I. genewise.c: In function 'build_objects': genewise.c:446:10: warning: unused variable 'ifp' [-Wunused-variable] 446 | FILE * ifp; | ^~~ gcc -o genewise genewise.o geneparser21.o geneparameter.o genestats.o genewisehsp.o geneutil.o geneoutput.o threestatemodel.o genefrequency.o splicesitemodeler.o genewise4.o genewise6.o genestretch6.o genewise21.o geneloop21.o geneloop6.o genephase6.o gwlite.o gwlitemodel.o gwrap.o matchsum.o estwrap.o genewisemodel.o phasemodel.o cdparser.o genedisplay.o estwise3.o estslim3.o estloop3.o estfrag3.o estslimloop.o gwquickdb.o threestatedb.o pfamhmmer1db.o pwmdna.o wise2xhmmer2.o genewisemodeldb.o seqhit.o standardout.o geneparser4.o sw_wrap.o abc.o pba.o seqaligndisplay.o dbadisplay.o proteinsw.o estquick3.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` -lhmmer -ldyna_glib -ldyna_glib -ldyna_glib -ldyna -lwisebase -lm -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` In function 'Wise2_GeneWiseCodonModel_from_GeneFrequencies', inlined from 'Wise2_GeneParameter21_from_GeneFrequency21' at geneparameter.dy:205:15: geneparameter.dy:115:34: warning: iteration 2 invokes undefined behavior [-Waggressive-loop-optimizations] 115 | out->in_acceptor[perm] = acceptor->gsc[l]->number / 64.0; | ^ geneparameter.dy:108:14: note: within this loop 108 | for(i=0;i<4;i++) | ^ geneparameter.dy:97:24: warning: iteration 2 invokes undefined behavior [-Waggressive-loop-optimizations] 97 | out->in_donor[perm] += donor->gsc[l]->number / 64.0; | ^ geneparameter.dy:90:14: note: within this loop 90 | for(i=0;i<4;i++) | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L genewisedb.c -I../base/ -I../dynlibsrc/ -I../HMMer2/ In file included from ../dynlibsrc/dyna.h:53, from threestatemodel.h:7, from wise2xhmmer2.h:24, from genewisedb.c:4: genewisedb.c: In function 'show_output': ../dynlibsrc/genomicregion.h:453:35: warning: 'cgr' may be used uninitialized [-Wmaybe-uninitialized] 453 | #define add_Gene_to_GenomicRegion Wise2_add_Gene_to_GenomicRegion genewisedb.c:216:19: note: 'cgr' was declared here 216 | GenomicRegion * cgr; | ^~~ gcc -g -o genewisedb genewisedb.o geneparser21.o geneparameter.o genestats.o genewisehsp.o geneutil.o geneoutput.o threestatemodel.o genefrequency.o splicesitemodeler.o genewise4.o genewise6.o genestretch6.o genewise21.o geneloop21.o geneloop6.o genephase6.o gwlite.o gwlitemodel.o gwrap.o matchsum.o estwrap.o genewisemodel.o phasemodel.o cdparser.o genedisplay.o estwise3.o estslim3.o estloop3.o estfrag3.o estslimloop.o gwquickdb.o threestatedb.o pfamhmmer1db.o pwmdna.o wise2xhmmer2.o genewisemodeldb.o seqhit.o standardout.o geneparser4.o sw_wrap.o abc.o pba.o seqaligndisplay.o dbadisplay.o proteinsw.o estquick3.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` -lhmmer -ldyna_glib -ldyna -lwisebase -lm -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` In function 'Wise2_GeneWiseCodonModel_from_GeneFrequencies', inlined from 'Wise2_GeneParameter21_from_GeneFrequency21' at geneparameter.dy:205:15, inlined from 'Wise2_GeneParameter21_wrap' at gwrap.dy:76:9, inlined from 'build_db_objects' at genewisedb.c:554:11: geneparameter.dy:115:34: warning: iteration 2 invokes undefined behavior [-Waggressive-loop-optimizations] 115 | out->in_acceptor[perm] = acceptor->gsc[l]->number / 64.0; | ^ geneparameter.dy:108:14: note: within this loop 108 | for(i=0;i<4;i++) | ^ geneparameter.dy:97:24: warning: iteration 2 invokes undefined behavior [-Waggressive-loop-optimizations] 97 | out->in_donor[perm] += donor->gsc[l]->number / 64.0; | ^ geneparameter.dy:90:14: note: within this loop 90 | for(i=0;i<4;i++) | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L estwisedb.c -I../base/ -I../dynlibsrc/ -I../HMMer2/ In file included from ../dynlibsrc/dyna.h:29, from threestatemodel.h:7, from wise2xhmmer2.h:24, from estwisedb.c:4: estwisedb.c: In function 'show_output': ../dynlibsrc/aln.h:222:34: warning: 'anchored' may be used uninitialized [-Wmaybe-uninitialized] 222 | #define add_to_anchored_AlnBlock Wise2_add_to_anchored_AlnBlock estwisedb.c:182:14: note: 'anchored' was declared here 182 | AlnBlock * anchored; | ^~~~~~~~ In file included from ../dynlibsrc/seqalign.h:6, from wise2xhmmer2.h:23: ../dynlibsrc/sequence.h:665:25: warning: 'set' may be used uninitialized [-Wmaybe-uninitialized] 665 | #define add_SequenceSet Wise2_add_SequenceSet estwisedb.c:183:17: note: 'set' was declared here 183 | SequenceSet * set; | ^~~ gcc -g -o estwisedb estwisedb.o geneparser21.o geneparameter.o genestats.o genewisehsp.o geneutil.o geneoutput.o threestatemodel.o genefrequency.o splicesitemodeler.o genewise4.o genewise6.o genestretch6.o genewise21.o geneloop21.o geneloop6.o genephase6.o gwlite.o gwlitemodel.o gwrap.o matchsum.o estwrap.o genewisemodel.o phasemodel.o cdparser.o genedisplay.o estwise3.o estslim3.o estloop3.o estfrag3.o estslimloop.o gwquickdb.o threestatedb.o pfamhmmer1db.o pwmdna.o wise2xhmmer2.o genewisemodeldb.o seqhit.o standardout.o geneparser4.o sw_wrap.o abc.o pba.o seqaligndisplay.o dbadisplay.o proteinsw.o estquick3.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` -lhmmer -ldyna_glib -ldyna -lwisebase -lm -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genomewise.c genomewise.c: In function 'main': genomewise.c:95:10: warning: unused variable 'divide_string' [-Wunused-variable] 95 | char * divide_string = "//"; | ^~~~~~~~~~~~~ genomewise.c:81:7: warning: unused variable 'kbyte' [-Wunused-variable] 81 | int kbyte = 10000; | ^~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genomewise9.c genomewise9.c: In function 'Wise2_calculate_shatter_GenomeWise9': genomewise9.c:137:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 137 | int lenj; | ^~~ genomewise9.c:136:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 136 | int leni; | ^~~ genomewise9.c:134:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 134 | int k; | ^~ genomewise9.c: In function 'Wise2_PackAln_bestmemory_GenomeWise9': genomewise9.c:1331:19: warning: unused variable 'de' [-Wunused-variable] 1331 | GenomeWise9 * mat; | ^~ genomewise9.c: In function 'Wise2_PackAln_calculate_Small_GenomeWise9': genomewise9.c:1895:19: warning: unused variable 'pau' [-Wunused-variable] 1895 | int score; | ^ genomewise9.c: In function 'Wise2_thread_loop_GenomeWise9': genomewise9.c:745:1: warning: control reaches end of non-void function [-Wreturn-type] 745 | { | ^ genomewise9.c: In function 'Wise2_PackAln_bestmemory_GenomeWise9': genomewise9.c:1392:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 1392 | | ^ genomewise9.c:1330:15: note: 'out' was declared here 1330 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genome_evidence.c genome_evidence.dy: In function 'Wise2_free_GenomeEvidenceUnit': genome_evidence.dy:61:1: warning: control reaches end of non-void function [-Wreturn-type] 61 | } | ^ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ est_evidence.c est_evidence.dy: In function 'Wise2_new_est_GenomeEvidenceUnit': est_evidence.dy:142:16: warning: assignment to 'int (*)(void *)' from incompatible pointer type 'Wise2_EstEvidence * (*)(Wise2_EstEvidence *)' [-Wincompatible-pointer-types] 142 | in->geu_free = free_EstEvidence; | ^ est_evidence.dy: In function 'Wise2_est_start_pot': est_evidence.dy:183:7: warning: unused variable 'i' [-Wunused-variable] 183 | int i; | ^ est_evidence.dy: In function 'Wise2_est_stop_pot': est_evidence.dy:203:7: warning: unused variable 'i' [-Wunused-variable] 203 | int i; | ^ gcc -g -o genomewise genomewise.o genomewise9.o genome_evidence.o est_evidence.o geneoutput.o geneutil.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` -ldyna_glib -ldyna -lwisebase -lm gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ sywise.c sywise.c: In function 'make_PairBaseCodonModelScore': sywise.c:64:10: warning: unused variable 'ifp' [-Wunused-variable] 64 | FILE * ifp; | ^~~ sywise.c: In function 'show_score_sequence': sywise.c:117:37: warning: array subscript has type 'char' [-Wchar-subscripts] 117 | match_score = m->base[pbs->seq[alc->alu[1]->start+1]]; | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ sywise.c:118:38: warning: array subscript has type 'char' [-Wchar-subscripts] 118 | match_score += m->base[pbs->seq[alc->alu[1]->start+2]]; | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ sywise.c:119:38: warning: array subscript has type 'char' [-Wchar-subscripts] 119 | match_score += m->base[pbs->seq[alc->alu[1]->start+3]]; | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ sywise.c: In function 'main': sywise.c:212:11: warning: unused variable 'show_gene_raw' [-Wunused-variable] 212 | boolean show_gene_raw = 0; | ^~~~~~~~~~~~~ sywise.c:211:11: warning: unused variable 'show_trans' [-Wunused-variable] 211 | boolean show_trans = 1; | ^~~~~~~~~~ sywise.c:204:27: warning: variable 'std_opt' set but not used [-Wunused-but-set-variable] 204 | StandardOutputOptions * std_opt; | ^~~~~~~ sywise.c:202:13: warning: unused variable 'trans' [-Wunused-variable] 202 | Protein * trans; | ^~~~~ sywise.c:201:19: warning: variable 'gr2' set but not used [-Wunused-but-set-variable] 201 | GenomicRegion * gr2; | ^~~ sywise.c:183:13: warning: unused variable 'score_mat' [-Wunused-variable] 183 | CompMat * score_mat; | ^~~~~~~~~ sywise.c:168:7: warning: unused variable 'i' [-Wunused-variable] 168 | int i; | ^ In file included from sywise.c:1: sywise20.h:328:46: warning: 'pal' may be used uninitialized [-Wmaybe-uninitialized] 328 | #define convert_PackAln_to_AlnBlock_SyWise20 Wise2_convert_PackAln_to_AlnBlock_SyWise20 sywise.c:196:13: note: 'pal' was declared here 196 | PackAln * pal; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ sywise20.c sywise20.c: In function 'Wise2_calculate_shatter_SyWise20': sywise20.c:137:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 137 | int lenj; | ^~~ sywise20.c:136:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 136 | int leni; | ^~~ sywise20.c:134:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 134 | int k; | ^~ sywise20.c: In function 'Wise2_serial_search_SyWise20': sywise20.c:789:9: warning: unused variable 'db_status' [-Wunused-variable] 789 | Search_Return_Type serial_search_SyWise20(Hscore * out,SyExonScore* exonmodel,ComplexSequence* seq ,PairBaseCodonModelScore* codon,PairBaseModelScore* nonc,PairBaseCodonModelScore* start,PairBaseCodonModelScore* stop,Score intron_open,Score gene_open,Score nonc_cost) | ^~~~~~~~~ sywise20.c: In function 'Wise2_PackAln_bestmemory_SyWise20': sywise20.c:1355:19: warning: unused variable 'de' [-Wunused-variable] 1355 | SyWise20 * mat; | ^ sywise20.c: In function 'Wise2_PackAln_calculate_Small_SyWise20': sywise20.c:1943:19: warning: unused variable 'pau' [-Wunused-variable] 1943 | int score; | ^ sywise20.c: In function 'Wise2_thread_loop_SyWise20': sywise20.c:764:1: warning: control reaches end of non-void function [-Wreturn-type] 764 | { | ^ sywise20.c: In function 'Wise2_PackAln_bestmemory_SyWise20': sywise20.c:1416:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 1416 | | ^ sywise20.c:1354:15: note: 'out' was declared here 1354 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ syexonmodel.c gcc -g -o sywise sywise.o sywise20.o syexonmodel.o genestats.o pwmdna.o standardout.o geneutil.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` -ldyna_glib -ldyna -lwisebase -lm gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ pseudowise.c pseudowise.c: In function 'pseudo_gene_assessment': pseudowise.c:99:39: warning: array subscript has type 'char' [-Wchar-subscripts] 99 | if( protein->comp[aa][pep->seq[pep_pos]] < 0 ) { | ~~~~~~~~^~~~~~~~~ pseudowise.c:57:9: warning: unused variable 'j' [-Wunused-variable] 57 | int i,j; | ^ pseudowise.c:57:7: warning: unused variable 'i' [-Wunused-variable] 57 | int i,j; | ^ pseudowise.c: In function 'main': pseudowise.c:180:7: warning: variable 'offset' set but not used [-Wunused-but-set-variable] 180 | int offset; | ^~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ pseudowise7.c pseudowise7.c: In function 'Wise2_calculate_shatter_PseudoWise7': pseudowise7.c:128:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 128 | int lenj; | ^~~ pseudowise7.c:127:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 127 | int leni; | ^~~ pseudowise7.c:125:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 125 | int k; | ^~ pseudowise7.c: In function 'Wise2_PackAln_bestmemory_PseudoWise7': pseudowise7.c:1207:19: warning: unused variable 'de' [-Wunused-variable] 1207 | PseudoWise7 * mat; | ^~ pseudowise7.c: In function 'Wise2_max_special_strip_PseudoWise7': pseudowise7.c:2471:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 2471 | { | ^ pseudowise7.c:2470:9: warning: unused variable 'temp' [-Wunused-variable] 2470 | int max_special_strip_PseudoWise7(PseudoWise7 * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ pseudowise7.c: In function 'Wise2_PackAln_bestmemory_PseudoWise7': pseudowise7.c:1268:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 1268 | | ^ pseudowise7.c:1206:15: note: 'out' was declared here 1206 | long long total; | ^~~ gcc -g -o pseudowise pseudowise.o pseudowise7.o geneparser21.o geneparameter.o genestats.o genewisehsp.o geneutil.o geneoutput.o threestatemodel.o genefrequency.o splicesitemodeler.o genewise4.o genewise6.o genestretch6.o genewise21.o geneloop21.o geneloop6.o genephase6.o gwlite.o gwlitemodel.o gwrap.o matchsum.o estwrap.o genewisemodel.o phasemodel.o cdparser.o genedisplay.o estwise3.o estslim3.o estloop3.o estfrag3.o estslimloop.o gwquickdb.o threestatedb.o pfamhmmer1db.o pwmdna.o wise2xhmmer2.o genewisemodeldb.o seqhit.o standardout.o geneparser4.o sw_wrap.o abc.o pba.o seqaligndisplay.o dbadisplay.o proteinsw.o estquick3.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` -lhmmer -ldyna_glib -ldyna -lwisebase -lm -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ `pkg-config --cflags glib-2.0` promoterwise.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ localdba.c localdba.c: In function 'Wise2_calculate_shatter_LocalDnaMatchBlock': localdba.c:127:9: warning: variable 'num' set but not used [-Wunused-but-set-variable] 127 | int lenj; | ^~~ localdba.c:126:9: warning: variable 'tot' set but not used [-Wunused-but-set-variable] 126 | int leni; | ^~~ localdba.c:124:9: warning: variable 'leni' set but not used [-Wunused-but-set-variable] 124 | int k; | ^~ localdba.c: In function 'Wise2_serial_search_LocalDnaMatchBlock': localdba.c:487:9: warning: unused variable 'db_status' [-Wunused-variable] 487 | Search_Return_Type serial_search_LocalDnaMatchBlock(Hscore * out,ComplexSequence* query,ComplexSequence* target ,LocalCisHitScore* lchs) | ^~~~~~~~~ localdba.c: In function 'Wise2_PackAln_bestmemory_LocalDnaMatchBlock': localdba.c:841:19: warning: unused variable 'de' [-Wunused-variable] 841 | LocalDnaMatchBlock * mat; | ^~ localdba.c: In function 'Wise2_max_special_strip_LocalDnaMatchBlock': localdba.c:1984:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] 1984 | { | ^ localdba.c:1983:9: warning: unused variable 'temp' [-Wunused-variable] 1983 | int max_special_strip_LocalDnaMatchBlock(LocalDnaMatchBlock * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) | ^~~~ localdba.c: In function 'Wise2_PackAln_bestmemory_LocalDnaMatchBlock': localdba.c:902:12: warning: 'out' may be used uninitialized [-Wmaybe-uninitialized] 902 | | ^ localdba.c:840:15: note: 'out' was declared here 840 | long long total; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ `pkg-config --cflags glib-2.0` localcishit.c localcishit.dy: In function 'Wise2_expand_to_subhits_LocalCisHitSet': localcishit.dy:91:7: warning: variable 'score' set but not used [-Wunused-but-set-variable] 91 | int score; | ^~~~~ localcishit.dy:90:7: warning: unused variable 'score_start' [-Wunused-variable] 90 | int score_start; | ^~~~~~~~~~~ localcishit.dy:89:7: warning: unused variable 'tend' [-Wunused-variable] 89 | int tend; | ^~~~ localcishit.dy:88:7: warning: unused variable 'qend' [-Wunused-variable] 88 | int qend; | ^~~~ localcishit.dy:87:7: warning: variable 'tstart' set but not used [-Wunused-but-set-variable] 87 | int tstart; | ^~~~~~ localcishit.dy:86:7: warning: variable 'qstart' set but not used [-Wunused-but-set-variable] 86 | int qstart; | ^~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ localcispara.c gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ motifmatrix.c motifmatrix.c: In function 'Wise2_MotifConsMatrix_alloc_matrix': motifmatrix.c:408:24: warning: assignment to 'char' from 'void *' makes integer from pointer without a cast [-Wint-conversion] 408 | for(i=0;iseed = temp; | ~~~~~~~~~~^~~~~~ transfactor.dy:838:14: note: 'temp' was declared here 838 | SeqAlign * temp; | ^~~~ transfactor.dy: In function 'Wise2_read_ben_IUPAC_TransFactorSet': transfactor.dy:680:21: warning: '%s' directive writing up to 511 bytes into a region of size between 495 and 504 [-Wformat-overflow=] 680 | sprintf(sbuffer,"motif_%d_%s",motif_no,buffer); | ^~~~~~~~~~~~~ ~~~~~~ In file included from /usr/include/stdio.h:906, from ../base/wisebase.h:6, from pwmdna.h:6, from transfactor.h:6, from transfactor.c:4: In function 'sprintf', inlined from 'Wise2_read_ben_IUPAC_TransFactorSet' at transfactor.dy:680:5: /usr/include/bits/stdio2.h:30:10: note: '__sprintf_chk' output between 9 and 529 bytes into a destination of size 512 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ transfactor.dy: In function 'Wise2_calculate_TransFactorMatchSet': transfactor.dy:427:9: warning: 'cutoff' may be used uninitialized [-Wmaybe-uninitialized] 427 | if( prob > cutoff ) { | ^ transfactor.dy:366:10: note: 'cutoff' was declared here 366 | double cutoff; | ^~~~~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ pairwiseshortdna.c pairwiseshortdna.dy: In function 'Wise2_query_to_reverse_target': pairwiseshortdna.dy:56:11: warning: variable 'reverse_tree' set but not used [-Wunused-but-set-variable] 56 | GTree * reverse_tree; | ^~~~~~~~~~~~ pairwiseshortdna.dy:55:11: warning: variable 'forward_tree' set but not used [-Wunused-but-set-variable] 55 | GTree * forward_tree; | ^~~~~~~~~~~~ gcc -g -o promoterwise promoterwise.o localdba.o localcishit.o localcispara.o dbadisplay.o motifmatrix.o motifmatrixdp.o transfactor.o pwmdna.o pairwiseshortdna.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` -ldyna_glib -ldyna -lwisebase -lm `pkg-config --libs glib-2.0` -lpthread gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ -o scanwisep_wiseserver.o -DSCAN_WISESERVER -I../network -I../socket -I../external/mott scanwisep.c scanwisep.c: In function 'new_HSPScanInterface_from_ScanWiseHSPImpl': scanwisep.c:73:7: warning: unused variable 'c' [-Wunused-variable] 73 | int c; | ^ scanwisep.c:72:7: warning: unused variable 'ret' [-Wunused-variable] 72 | int ret; | ^~~ scanwisep.c:70:14: warning: unused variable 'seq' [-Wunused-variable] 70 | Sequence * seq; | ^~~ scanwisep.c: In function 'HitPair_from_HSPset_sw': scanwisep.c:305:7: warning: unused variable 'i' [-Wunused-variable] 305 | int i; | ^ scanwisep.c: In function 'HitList_from_LinearHSPmanager_sw': scanwisep.c:326:30: warning: unused variable 'conv' [-Wunused-variable] 326 | struct convert_data_fulldp conv; | ^~~~ scanwisep.c: In function 'main': scanwisep.c:476:25: warning: variable 'ssl' set but not used [-Wunused-but-set-variable] 476 | SearchStatInterface * ssl; | ^~~ gcc -c -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -pthread -D_GNU_SOURCE -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-4 -pthread -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ `pkg-config --cflags glib-2.0` hsp2aln_sw.c hsp2aln_sw.dy: In function 'Wise2_worker_thread_LM2HitList': hsp2aln_sw.dy:119:71: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 119 | if( tm->current_pos >= tm->input->len || tm->para->no_hitalns > 0 && tm->current_pos > tm->para->no_hitalns || | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -o scanwise scanwisep_wiseserver.o sw_wrap.o seqaligndisplay.o proteinsw.o abc.o pba.o hsp2aln_sw.o ../network/net_hspscan.o ../network/client_multihspscan.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` -L../external/mott -L../socket -lmott -ldyna_glib -ldyna -lwisesocket -lwisebase -lm -lpthread -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lpthread `pkg-config --libs glib-2.0` ar ru libmodel.a geneparser21.o geneparameter.o genestats.o genewisehsp.o geneutil.o geneoutput.o threestatemodel.o genefrequency.o splicesitemodeler.o genewise4.o genewise6.o genestretch6.o genewise21.o geneloop21.o geneloop6.o genephase6.o gwlite.o gwlitemodel.o gwrap.o matchsum.o estwrap.o genewisemodel.o phasemodel.o cdparser.o genedisplay.o estwise3.o estslim3.o estloop3.o estfrag3.o estslimloop.o gwquickdb.o threestatedb.o pfamhmmer1db.o pwmdna.o wise2xhmmer2.o genewisemodeldb.o seqhit.o standardout.o geneparser4.o sw_wrap.o abc.o pba.o seqaligndisplay.o dbadisplay.o proteinsw.o estquick3.o ar: creating libmodel.a make[1]: Leaving directory '/builddir/build/BUILD/wise2.4.1/src/models' make bin make[1]: Entering directory '/builddir/build/BUILD/wise2.4.1/src' mkdir bin cp models/pswdb models/psw models/genewisedb models/estwisedb models/estwise models/genewise models/dba models/dnal models/promoterwise network/scanwise_server models/scanwise ./bin ./welcome.csh Welcome to Wise2.4 The executable programs are in the ./bin directory You must set your WISECONFIGDIR to the config directory before using the programs ie, type setenv WISECONFIGDIR /builddir/build/BUILD/wise2.4.1/src/../wisecfg/ to try an example, try cd example and then ../bin/genewise road.pep human.genomic to build perl, type make perl and follow the instructions to test the package, type make test make[1]: Leaving directory '/builddir/build/BUILD/wise2.4.1/src' make: Leaving directory '/builddir/build/BUILD/wise2.4.1/src' + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.VFqZw9 + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64 ++ dirname /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes' ~/build/BUILD/wise2.4.1/src/bin ~/build/BUILD/wise2.4.1 + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd wise2.4.1 + pushd src/bin + mkdir -p /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb promoterwise scanwise scanwise_server psw pswdb + install -pm 755 dba /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb promoterwise scanwise scanwise_server psw pswdb + install -pm 755 dnal /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb promoterwise scanwise scanwise_server psw pswdb + install -pm 755 estwise /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb promoterwise scanwise scanwise_server psw pswdb + install -pm 755 estwisedb /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb promoterwise scanwise scanwise_server psw pswdb + install -pm 755 genewise /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb promoterwise scanwise scanwise_server psw pswdb + install -pm 755 genewisedb /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb promoterwise scanwise scanwise_server psw pswdb + install -pm 755 promoterwise /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb promoterwise scanwise scanwise_server psw pswdb + install -pm 755 scanwise /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb promoterwise scanwise scanwise_server psw pswdb + install -pm 755 scanwise_server /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb promoterwise scanwise scanwise_server psw pswdb + install -pm 755 psw /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb promoterwise scanwise scanwise_server psw pswdb + install -pm 755 pswdb /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin + popd ~/build/BUILD/wise2.4.1 + mkdir -p /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/wise2 + pushd wisecfg ~/build/BUILD/wise2.4.1/wisecfg ~/build/BUILD/wise2.4.1 + install -pm 644 BLOSUM30.bla BLOSUM45.bla BLOSUM62.bla BLOSUM80.bla aa.rnd cb.tmf codon.martian codon.table gene.stat gon120.bla gon160.bla gon200.bla gon250.bla gon350.bla human.gf human.gp human.stats idenity.bla methods pb.gf pombe.gf tm.pri wag55 wag65 wag75 wag85 wise.2 wise.per worm.gf /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/wise2 + popd ~/build/BUILD/wise2.4.1 + mkdir -p /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/wise2/examples + pushd test_data ~/build/BUILD/wise2.4.1/test_data ~/build/BUILD/wise2.4.1 + install -pm 644 HOX.HMM Q8NAN2.dna Q8NAN2.pep README alignwise.gen db.hmm dummy_hox.dna epo.genomic epo.pep fugu.gen fugu_human.pep hn_est.fa human.genomic jason.dna jason.pep keratin_intron.human keratin_intron.mouse pep.fa phased_roa1.pep road.pep rpo_fugu.gen rpo_h_f.anchor rpo_h_m.anchor rpo_h_r.anchor rpo_human.gen rpo_human.intron rpo_human.pep rpo_mouse.gen rpo_rat.gen rrm.HMM rua1.pep vav.dna vav_promoter.human vav_promoter.mouse xeno.cdna xeno.pep /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/wise2/examples + popd ~/build/BUILD/wise2.4.1 + mkdir -p /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/etc/profile.d + echo 'export WISECONFIGDIR=/usr/share/wise2/' + echo 'setenv WISECONFIGDIR /usr/share/wise2/' + /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 2.4.1-16.fc38 --unique-debug-suffix -2.4.1-16.fc38.x86_64 --unique-debug-src-base wise2-2.4.1-16.fc38.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/wise2.4.1 extracting debug info from /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin/dnal extracting debug info from /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin/dba extracting debug info from /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin/estwise extracting debug info from /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin/estwisedb extracting debug info from /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin/genewise extracting debug info from /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin/genewisedb extracting debug info from /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin/promoterwise extracting debug info from /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin/psw extracting debug info from /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin/pswdb extracting debug info from /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin/scanwise extracting debug info from /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/bin/scanwise_server original debug info size: 15336kB, size after compression: 11876kB /usr/bin/sepdebugcrcfix: Updated 11 CRC32s, 0 CRC32s did match. 23175 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/check-rpaths + /usr/lib/rpm/redhat/brp-mangle-shebangs *** WARNING: ./usr/src/debug/wise2-2.4.1-16.fc38.x86_64/src/base/wisetime.dy is executable but has no shebang, removing executable bit *** WARNING: ./usr/src/debug/wise2-2.4.1-16.fc38.x86_64/src/base/wiseoverlay.dy is executable but has no shebang, removing executable bit *** WARNING: ./usr/src/debug/wise2-2.4.1-16.fc38.x86_64/src/base/wisememman.dy is executable but has no shebang, removing executable bit *** WARNING: ./usr/src/debug/wise2-2.4.1-16.fc38.x86_64/src/base/wisefile.dy is executable but has no shebang, removing executable bit + /usr/lib/rpm/brp-remove-la-files + /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 + /usr/lib/rpm/redhat/brp-python-hardlink Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.lFNodT + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd wise2.4.1 + export WISECONFIGDIR=/builddir/build/BUILD/wise2.4.1/wisecfg + WISECONFIGDIR=/builddir/build/BUILD/wise2.4.1/wisecfg + make -C src test make: Entering directory '/builddir/build/BUILD/wise2.4.1/src' cd test ; perl testman.pl -cf ../wisecfg < short.test >>> Doing promoterwise promoterwise standard test >>> Calling [../bin/promoterwise -silent pw.human pw.mouse > TEMP-PW] >>> promoterwise ... Passed >>> Doing basic-cdna cdna test case (protein v cdna), all outputs >>> Calling [../bin/estwise short.pep short.dna -indel 1e-5 -subs 1e-5 -pretty -para -sum -alb -pal -silent -alg 333 > TEMP] >>> basic-cdna ... Passed >>> Doing basic-genomic genomic test case (protein v genomic), all outputs >>> Calling [../bin/genewise short.pep short.dna -pretty -para -genes -sum -cdna -trans -ace -gener -alb -pal -quiet -dymem linear > TEMP] >>> basic-genomic ... Passed >>> Doing hmm-binary-cdna cdna test case (protein v cdna), all outputs >>> Calling [../bin/estwise HMM.binary -indel 1e-5 -subs 1e-5 -hmmer short.dna -pretty -para -sum -alb -pal -quiet -alg 333L > TEMP] FATAL: No support for non-protein, non-nucleic acid alphabets. >>> Bad exit status - 256 (system - ) >>> hmm-binary-cdna ... Failed >>> Doing hmm-wrong-dna HMMs vs DNA sequence when there is no match >>> Calling [../bin/genewise wrong.hmm -hmmer short.dna -alg 623 -pal > TEMP] Information In making HSHNCPA1 a genomic sequence, converted 2 bases (0.5%) to N's from non ATGCN GeneWise6 Matrix calculation: [ 0] Cells 0%[ 1000] Cells 3%[ 2000] Cells 6%[ 3000] Cells 9%[ 4000] Cells 12%[ 5000] Cells 15%[ 6000] Cells 18%[ 7000] Cells 21%[ 8000] Cells 24%[ 9000] Cells 27%[ 10000] Cells 30%[ 11000] Cells 33%[ 12000] Cells 36%[ 13000] Cells 39%[ 14000] Cells 42%[ 15000] Cells 45%[ 16000] Cells 48%[ 17000] Cells 51%[ 18000] Cells 54%[ 19000] Cells 57%[ 20000] Cells 61%[ 21000] Cells 64%[ 22000] Cells 67%[ 23000] Cells 70%[ 24000] Cells 73%[ 25000] Cells 76%[ 26000] Cells 79%[ 27000] Cells 82%[ 28000] Cells 85%[ 29000] Cells 88%[ 30000] Cells 91%[ 31000] Cells 94%[ 32000] Cells 97% >>> hmm-wrong-dna ... Passed >>> Doing hmm-wrong-dna-est HMMs vs DNA sequence when there is no match >>> Calling [../bin/estwise wrong.hmm -hmmer short.dna -alg 333 -pal > TEMP] Information In making HSHNCPA1 a cdna sequence, converted 2 bases (0.5%) to N's from non ATGCN EstWise3 Matrix calculation: [ 0] Cells 0%[ 1000] Cells 3%[ 2000] Cells 6%[ 3000] Cells 9%[ 4000] Cells 12%[ 5000] Cells 15%[ 6000] Cells 18%[ 7000] Cells 21%[ 8000] Cells 24%[ 9000] Cells 27%[ 10000] Cells 30%[ 11000] Cells 33%[ 12000] Cells 36%[ 13000] Cells 39%[ 14000] Cells 42%[ 15000] Cells 45%[ 16000] Cells 48%[ 17000] Cells 51%[ 18000] Cells 54%[ 19000] Cells 57%[ 20000] Cells 61%[ 21000] Cells 64%[ 22000] Cells 67%[ 23000] Cells 70%[ 24000] Cells 73%[ 25000] Cells 76%[ 26000] Cells 79%[ 27000] Cells 82%[ 28000] Cells 85%[ 29000] Cells 88%[ 30000] Cells 91%[ 31000] Cells 94%[ 32000] Cells 97% EstWise3 Matrix calculation: [ 0] Cells 0%[ 1000] Cells 3%[ 2000] Cells 6%[ 3000] Cells 9%[ 4000] Cells 12%[ 5000] Cells 15%[ 6000] Cells 18%[ 7000] Cells 21%[ 8000] Cells 24%[ 9000] Cells 27%[ 10000] Cells 30%[ 11000] Cells 33%[ 12000] Cells 36%[ 13000] Cells 39%[ 14000] Cells 42%[ 15000] Cells 45%[ 16000] Cells 48%[ 17000] Cells 51%[ 18000] Cells 54%[ 19000] Cells 57%[ 20000] Cells 61%[ 21000] Cells 64%[ 22000] Cells 67%[ 23000] Cells 70%[ 24000] Cells 73%[ 25000] Cells 76%[ 26000] Cells 79%[ 27000] Cells 82%[ 28000] Cells 85%[ 29000] Cells 88%[ 30000] Cells 91%[ 31000] Cells 94%[ 32000] Cells 97% >>> hmm-wrong-dna-est ... Passed >>> Doing hmm-ascii-genomic cdna test case (protein v cdna), all outputs >>> Calling [../bin/genewise -init local HMM.ascii -hmmer short.dna -pretty -para -genes -sum -cdna -trans -ace -gener -alb -pal -quiet > TEMP] FATAL: No support for non-protein, non-nucleic acid alphabets. >>> Bad exit status - 256 (system - ) >>> hmm-ascii-genomic ... Failed >>> Doing genewise-db genewisedb hmm vs DNA sequences. Could take a while >>> Calling [../bin/genewisedb rrm.HMM -hmmer dna.db -pretty -para -gener -genes -cdna -trans -ace -quiet -init global > TEMP] >>> genewise-db ... Passed >>> Doing genewise-db-lite genewisedb hmm vs DNA sequences, using GWLITE. Could take a while >>> Calling [../bin/genewisedb rrm.HMM -hmmer dna.db -pretty -para -gener -genes -cdna -trans -ace -quiet -init global -alg 6LITE > TEMP] >>> genewise-db-lite ... Passed >>> Doing estwise-db estwisedb hmm vs DNA sequences. Could take a while >>> Calling [../bin/estwisedb -init local rrm.HMM -hmmer dna.db -pretty -para -alb -quiet -alg 333 -aalg 333 > TEMP] >>> estwise-db ... Passed >>> Doing pswdb Protein smith waterman db search >>> Calling [../bin/pswdb road.pep pep.fa -quiet > TEMP ] >>> pswdb ... Passed >>> Doing genewisedb-pfam-mode genewisedb designed for Pfam searching >>> Calling [../bin/genewisedb -pfam rrm.HMM -dnas short.dna -pretty -para -alb -quiet -alg 623 -aalg 623L > TEMP] >>> genewisedb-pfam-mode ... Passed Tests failed PLEASE: email ewan birney (birney@sanger.ac.uk) with the test.results file make: Leaving directory '/builddir/build/BUILD/wise2.4.1/src' + RPM_EC=0 ++ jobs -p + exit 0 Processing files: wise2-2.4.1-16.fc38.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.D79sHU + umask 022 + cd /builddir/build/BUILD + cd wise2.4.1 + DOCDIR=/builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/doc/wise2 + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/doc/wise2 + cp -pr README /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/doc/wise2 + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.HLNl8V + umask 022 + cd /builddir/build/BUILD + cd wise2.4.1 + LICENSEDIR=/builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/licenses/wise2 + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/licenses/wise2 + cp -pr LICENSE /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/licenses/wise2 + cp -pr LICENSE.base /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/licenses/wise2 + cp -pr LICENSE.dynlibsrc /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/licenses/wise2 + cp -pr LICENSE.dyc /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/licenses/wise2 + cp -pr LICENSE.GPL /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/licenses/wise2 + RPM_EC=0 ++ jobs -p + exit 0 Provides: config(wise2) = 2.4.1-16.fc38 wise2 = 2.4.1-16.fc38 wise2(x86-64) = 2.4.1-16.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: 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_2.34)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libglib-2.0.so.0()(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.29)(64bit) rtld(GNU_HASH) Processing files: wise2-doc-2.4.1-16.fc38.noarch Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.gyOaG8 + umask 022 + cd /builddir/build/BUILD + cd wise2.4.1 + DOCDIR=/builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/doc/wise2-doc + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/doc/wise2-doc + cp -pr docs /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/doc/wise2-doc + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.Uppkvv + umask 022 + cd /builddir/build/BUILD + cd wise2.4.1 + LICENSEDIR=/builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/licenses/wise2-doc + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/licenses/wise2-doc + cp -pr LICENSE /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/licenses/wise2-doc + RPM_EC=0 ++ jobs -p + exit 0 Provides: wise2-doc = 2.4.1-16.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: wise2-examples-2.4.1-16.fc38.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.QF1YTB + umask 022 + cd /builddir/build/BUILD + cd wise2.4.1 + DOCDIR=/builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/doc/wise2-examples + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/doc/wise2-examples + cp -pr test_data/README /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64/usr/share/doc/wise2-examples + RPM_EC=0 ++ jobs -p + exit 0 Provides: wise2-examples = 2.4.1-16.fc38 wise2-examples(x86-64) = 2.4.1-16.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: wise2-debugsource-2.4.1-16.fc38.x86_64 Provides: wise2-debugsource = 2.4.1-16.fc38 wise2-debugsource(x86-64) = 2.4.1-16.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: wise2-debuginfo-2.4.1-16.fc38.x86_64 Provides: debuginfo(build-id) = 0fcddc33c31262f2aad9f93e67cdb519efd44d55 debuginfo(build-id) = 12c51e0dd2699572f6a21433a62580d132b000a4 debuginfo(build-id) = 223fb85c51fc53bdce854ed54e24d3e804653837 debuginfo(build-id) = 2aab1c257d252c9b6c8b18c9814349736529bee1 debuginfo(build-id) = 39004850504de14ef5c6d6d59eea25153bae5041 debuginfo(build-id) = 87ff7435e702c90fd10536aca148f58fa23e4fa0 debuginfo(build-id) = 956d793bd01cf5e614266962ff8172fd94566249 debuginfo(build-id) = b8fa46850821ebfc6ade6967eeeaabcf60a1ef63 debuginfo(build-id) = be3f71671dbec1b53d72294fafab69c7d7b65076 debuginfo(build-id) = bf51adc5315deba50f69716313cdc4ec456f6890 debuginfo(build-id) = d14e1393ad744a24987dc4508737e474352f1062 wise2-debuginfo = 2.4.1-16.fc38 wise2-debuginfo(x86-64) = 2.4.1-16.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: wise2-debugsource(x86-64) = 2.4.1-16.fc38 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64 Wrote: /builddir/build/RPMS/wise2-debuginfo-2.4.1-16.fc38.x86_64.rpm Wrote: /builddir/build/RPMS/wise2-2.4.1-16.fc38.x86_64.rpm Wrote: /builddir/build/RPMS/wise2-examples-2.4.1-16.fc38.x86_64.rpm Wrote: /builddir/build/RPMS/wise2-doc-2.4.1-16.fc38.noarch.rpm Wrote: /builddir/build/RPMS/wise2-debugsource-2.4.1-16.fc38.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.PEzDrD + umask 022 + cd /builddir/build/BUILD + cd wise2.4.1 + /usr/bin/rm -rf /builddir/build/BUILDROOT/wise2-2.4.1-16.fc38.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.m35Jnj + umask 022 + cd /builddir/build/BUILD + rm -rf wise2.4.1 wise2.4.1.gemspec + RPM_EC=0 ++ jobs -p + exit 0 Finish: rpmbuild wise2-2.4.1-16.fc38.src.rpm Finish: build phase for wise2-2.4.1-16.fc38.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-rawhide-x86_64-1672387198.399289/root/var/log/dnf.rpm.log /var/lib/mock/fedora-rawhide-x86_64-1672387198.399289/root/var/log/dnf.librepo.log /var/lib/mock/fedora-rawhide-x86_64-1672387198.399289/root/var/log/dnf.log INFO: Done(/var/lib/copr-rpmbuild/results/wise2-2.4.1-16.fc38.src.rpm) Config(child) 2 minutes 59 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