Warning: Permanently added '100.58.193.253' (ED25519) to the list of known hosts. You can reproduce this build on your computer by running: sudo dnf install copr-rpmbuild /usr/bin/copr-rpmbuild --verbose --drop-resultdir --task-url https://copr.fedorainfracloud.org/backend/get-build-task/11039393-fedora-rawhide-aarch64 --chroot fedora-rawhide-aarch64 Version: 1.10 PID: 60057 Logging PID: 60059 Task: {'allow_user_ssh': False, 'appstream': False, 'background': False, 'build_id': 11039393, 'buildroot_pkgs': [], 'chroot': 'fedora-rawhide-aarch64', 'enable_net': False, 'fedora_review': False, 'git_hash': '332fa7a6f988c08af202fe2c499b8a0264b9d1fc', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/mhough/neurofedora/ucsc-kent-utils', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'ucsc-kent-utils', 'package_version': '492-1', 'project_dirname': 'neurofedora', 'project_name': 'neurofedora', 'project_owner': 'mhough', 'repo_priority': None, 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/mhough/neurofedora/fedora-rawhide-aarch64/', 'id': 'copr_base', 'name': 'Copr repository', 'priority': None, 'repo_gpgcheck': False}], 'sandbox': 'mhough/neurofedora--mhough', 'source_json': {}, 'source_type': None, 'ssh_public_keys': None, 'storage': 0, 'submitter': 'mhough', 'tags': [], 'task_id': '11039393-fedora-rawhide-aarch64', 'timeout': 108000, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/mhough/neurofedora/ucsc-kent-utils /var/lib/copr-rpmbuild/workspace/workdir-k7pos9ec/ucsc-kent-utils --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/mhough/neurofedora/ucsc-kent-utils', '/var/lib/copr-rpmbuild/workspace/workdir-k7pos9ec/ucsc-kent-utils', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-k7pos9ec/ucsc-kent-utils'... Running: git checkout 332fa7a6f988c08af202fe2c499b8a0264b9d1fc -- cmd: ['git', 'checkout', '332fa7a6f988c08af202fe2c499b8a0264b9d1fc', '--'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-k7pos9ec/ucsc-kent-utils rc: 0 stdout: stderr: Note: switching to '332fa7a6f988c08af202fe2c499b8a0264b9d1fc'. 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 332fa7a automatic import of ucsc-kent-utils Running: dist-git-client sources cmd: ['dist-git-client', 'sources'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-k7pos9ec/ucsc-kent-utils 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 kent-core-492.tar.gz INFO: Reading stdout from command: curl --help all INFO: Calling: curl -H Pragma: -H 'Accept-Encoding: identity' -o kent-core-492.tar.gz --location --connect-timeout 60 --retry 3 --retry-delay 10 --remote-time --show-error --fail --retry-all-errors https://copr-dist-git.fedorainfracloud.org/repo/pkgs/mhough/neurofedora/ucsc-kent-utils/kent-core-492.tar.gz/md5/0b52885fa27ef4747a74d5a802b1fb8a/kent-core-492.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 24.10M 100 24.10M 0 0 25.83M 0 0 INFO: Reading stdout from command: md5sum kent-core-492.tar.gz tail: /var/lib/copr-rpmbuild/main.log: file truncated Running (timeout=108000): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-k7pos9ec/ucsc-kent-utils/ucsc-kent-utils.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-k7pos9ec/ucsc-kent-utils --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1790449600.407140 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 6.8 starting (python version = 3.14.5, NVR = mock-6.8-1.fc44), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-k7pos9ec/ucsc-kent-utils/ucsc-kent-utils.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-k7pos9ec/ucsc-kent-utils --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1790449600.407140 -r /var/lib/copr-rpmbuild/results/configs/child.cfg Start(bootstrap): init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish(bootstrap): init plugins Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/var/lib/copr-rpmbuild/workspace/workdir-k7pos9ec/ucsc-kent-utils/ucsc-kent-utils.spec) Config(fedora-rawhide-aarch64) Start: clean chroot Finish: clean chroot Mock Version: 6.8 INFO: Mock Version: 6.8 Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1790449600.407140/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata INFO: Guessed host environment type: unknown INFO: Using container image: registry.fedoraproject.org/fedora:rawhide INFO: Pulling image: registry.fedoraproject.org/fedora:rawhide INFO: Tagging container image as mock-bootstrap-c8b70ced-19f4-4476-ae50-ca7bd6590226 INFO: Checking that 0a4daa9793d21dcf34c6fd07372e53ff74a83f36285009e1acdbe499a77f32fe image matches host's architecture INFO: Copy content of container 0a4daa9793d21dcf34c6fd07372e53ff74a83f36285009e1acdbe499a77f32fe to /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1790449600.407140/root INFO: mounting 0a4daa9793d21dcf34c6fd07372e53ff74a83f36285009e1acdbe499a77f32fe with podman image mount INFO: image 0a4daa9793d21dcf34c6fd07372e53ff74a83f36285009e1acdbe499a77f32fe as /var/lib/containers/storage/overlay/52a0b2572efea6de17a0dd5bc260edca05044e70ed04dfde5ab16d2ab7022e11/merged INFO: umounting image 0a4daa9793d21dcf34c6fd07372e53ff74a83f36285009e1acdbe499a77f32fe (/var/lib/containers/storage/overlay/52a0b2572efea6de17a0dd5bc260edca05044e70ed04dfde5ab16d2ab7022e11/merged) with podman image umount INFO: Removing image mock-bootstrap-c8b70ced-19f4-4476-ae50-ca7bd6590226 INFO: Package manager dnf5 detected and used (fallback) INFO: Not updating bootstrap chroot, bootstrap_image_ready=True Start(bootstrap): creating root cache Finish(bootstrap): creating root cache Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-1790449600.407140/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin INFO: Package manager dnf5 detected and used (direct choice) INFO: Buildroot is handled by package management downloaded with a bootstrap image: rpm-6.1.0-1.fc46.aarch64 rpm-sequoia-1.10.3-1.fc46.aarch64 dnf5-5.4.6.0-1.fc46.aarch64 dnf5-plugins-5.4.6.0-1.fc46.aarch64 Start: installing minimal buildroot with dnf5 Updating and loading repositories: fedora 100% | 118.9 KiB/s | 7.7 KiB | 00m00s Copr repository 100% | 169.6 KiB/s | 1.5 KiB | 00m00s Repositories loaded. Package Arch Version Repository Size Installing group/module packages: bash aarch64 0:5.3.15-2.fc45 fedora 8.4 MiB bzip2 aarch64 0:1.0.8-24.fc45 fedora 171.2 KiB coreutils aarch64 0:9.12-1.fc46 fedora 8.6 MiB cpio aarch64 0:2.15-10.fc45 fedora 1.1 MiB diffutils aarch64 0:3.12-6.fc45 fedora 1.6 MiB fedora-release-common noarch 0:46-0.1 fedora 4.6 KiB findutils aarch64 1:4.11.0-2.fc45 fedora 2.0 MiB gawk aarch64 0:5.4.1-1.fc45 fedora 2.9 MiB glibc-minimal-langpack aarch64 0:2.44.9000-2.fc46 fedora 0.0 B grep aarch64 0:3.12-4.fc45 fedora 1.0 MiB gzip aarch64 0:1.14-4.fc45 fedora 437.6 KiB info aarch64 0:7.3-3.fc45 fedora 424.4 KiB patch aarch64 0:2.8-5.fc45 fedora 262.4 KiB redhat-rpm-config noarch 0:345-4.fc46 fedora 184.2 KiB rpm-build aarch64 0:6.1.0-1.fc46 fedora 616.1 KiB sed aarch64 0:4.10-2.fc45 fedora 878.4 KiB shadow-utils aarch64 2:4.20.0-1.fc45 fedora 4.4 MiB tar aarch64 2:1.35-9.fc45 fedora 3.0 MiB unzip aarch64 0:6.0-71.fc45 fedora 469.9 KiB util-linux aarch64 0:2.42.4-2.fc46 fedora 6.9 MiB which aarch64 0:2.25-2.fc45 fedora 123.6 KiB xz aarch64 1:5.8.4-1.fc46 fedora 1.5 MiB Installing dependencies: R-srpm-macros noarch 0:1.3.7-3.fc45 fedora 3.5 KiB add-determinism aarch64 0:0.7.3-3.fc45 fedora 1.9 MiB alternatives aarch64 0:1.33-6.fc45 fedora 90.1 KiB ansible-srpm-macros noarch 0:1-22.fc45 fedora 35.7 KiB audit-libs aarch64 0:4.2.1-2.fc45 fedora 486.7 KiB binutils aarch64 0:2.47.50-11.fc46 fedora 27.2 MiB build-reproducibility-srpm-macros noarch 0:0.7.3-3.fc45 fedora 1.2 KiB bzip2-libs aarch64 0:1.0.8-24.fc45 fedora 72.5 KiB ca-certificates noarch 0:2026.2.90_v9.0.317-1.fc46 fedora 2.6 MiB cmake-srpm-macros noarch 0:4.3.0-5.fc45 fedora 524.0 B coreutils-common aarch64 0:9.12-1.fc46 fedora 11.5 MiB crypto-policies noarch 0:20260713-2.gitc42da77.fc45 fedora 134.3 KiB curl aarch64 0:8.23.0~rc2-1.fc46 fedora 525.6 KiB cyrus-sasl-lib aarch64 0:2.1.28-37.fc45 fedora 2.4 MiB debugedit aarch64 0:5.3-3.fc45 fedora 320.9 KiB dwz aarch64 0:0.17-3.fc45 fedora 322.7 KiB ed aarch64 0:1.22.6-1.fc46 fedora 158.9 KiB efi-srpm-macros noarch 0:6-9.fc45 fedora 40.3 KiB elfutils aarch64 0:0.196-1.fc46 fedora 3.8 MiB elfutils-debuginfod-client aarch64 0:0.196-1.fc46 fedora 144.0 KiB elfutils-libelf aarch64 0:0.196-1.fc46 fedora 1.5 MiB elfutils-libs aarch64 0:0.196-1.fc46 fedora 746.6 KiB erlang-srpm-macros noarch 0:0.3.11-2.fc45 fedora 1.9 KiB fedora-gpg-keys noarch 0:46-0.3 fedora 130.3 KiB fedora-release noarch 0:46-0.1 fedora 0.0 B fedora-release-identity-basic noarch 0:46-0.1 fedora 664.0 B fedora-repos noarch 0:46-0.3 fedora 4.9 KiB fedora-repos-rawhide noarch 0:46-0.3 fedora 2.2 KiB file aarch64 0:5.48-3.fc46 fedora 141.9 KiB file-libs aarch64 0:5.48-3.fc46 fedora 12.4 MiB filesystem aarch64 0:3.18-59.fc45 fedora 112.0 B filesystem-srpm-macros noarch 0:3.18-59.fc45 fedora 38.2 KiB fips-provider aarch64 0:1.5.3-1.fc46 fedora 3.8 MiB fonts-srpm-macros noarch 1:5.0.0-4.fc45 fedora 55.8 KiB forge-srpm-macros noarch 0:0.4.0-5.fc45 fedora 38.9 KiB fpc-srpm-macros noarch 0:1.3-17.fc45 fedora 144.0 B gap-srpm-macros noarch 0:2-3.fc45 fedora 2.1 KiB gdb-minimal aarch64 0:17.2-6.fc46 fedora 13.5 MiB gdbm-libs aarch64 1:1.23-12.fc45 fedora 233.8 KiB ghc-srpm-macros noarch 0:1.10-2.fc45 fedora 792.0 B glibc aarch64 0:2.44.9000-2.fc46 fedora 6.6 MiB glibc-common aarch64 0:2.44.9000-2.fc46 fedora 1.3 MiB glibc-gconv-extra aarch64 0:2.44.9000-2.fc46 fedora 18.6 MiB gmp aarch64 1:6.3.0-6.fc45 fedora 657.9 KiB gnat-srpm-macros noarch 0:7-3.fc45 fedora 1.0 KiB gnome-srpm-macros noarch 0:1.0-2.fc45 fedora 3.5 KiB gnulib-l10n noarch 0:20241231-4.fc45 fedora 655.0 KiB gnupg2 aarch64 0:2.4.9-18.fc45 fedora 6.4 MiB gnupg2-dirmngr aarch64 0:2.4.9-18.fc45 fedora 646.1 KiB gnupg2-gpg-agent aarch64 0:2.4.9-18.fc45 fedora 846.9 KiB gnupg2-gpgconf aarch64 0:2.4.9-18.fc45 fedora 321.8 KiB gnupg2-keyboxd aarch64 0:2.4.9-18.fc45 fedora 233.2 KiB gnupg2-verify aarch64 0:2.4.9-18.fc45 fedora 364.3 KiB gnutls aarch64 0:3.8.13-5.fc46 fedora 3.7 MiB go-srpm-macros noarch 0:3.8.0-3.fc45 fedora 61.9 KiB gpgverify noarch 0:2.2-5.fc45 fedora 8.7 KiB ima-evm-utils-libs aarch64 0:1.6.2-12.fc45 fedora 92.6 KiB jansson aarch64 0:2.14-5.fc45 fedora 93.0 KiB java-srpm-macros noarch 0:1-9.fc45 fedora 870.0 B json-c aarch64 0:0.18-9.fc45 fedora 138.5 KiB kernel-srpm-macros noarch 0:1.0-30.fc45 fedora 1.9 KiB keyutils-libs aarch64 0:1.6.3-8.fc45 fedora 98.2 KiB krb5-libs aarch64 0:1.22.2-9.fc45 fedora 2.5 MiB libacl aarch64 0:2.4.0-2.fc45 fedora 67.9 KiB libarchive aarch64 0:3.8.9-2.fc46 fedora 975.7 KiB libassuan aarch64 0:2.5.7-6.fc45 fedora 215.9 KiB libattr aarch64 0:2.6.0-2.fc45 fedora 68.4 KiB libblkid aarch64 0:2.42.4-2.fc46 fedora 290.3 KiB libbrotli aarch64 0:1.2.0-6.fc45 fedora 909.2 KiB libcap aarch64 0:2.78-2.fc45 fedora 508.4 KiB libcap-ng aarch64 0:0.9.6-1.fc46 fedora 160.9 KiB libcbor aarch64 0:0.14.0-3.fc45 fedora 139.6 KiB libcom_err aarch64 0:1.47.4-2.fc45 fedora 111.1 KiB libcurl aarch64 0:8.23.0~rc2-1.fc46 fedora 1.0 MiB libeconf aarch64 0:0.7.9-4.fc45 fedora 80.8 KiB libevent aarch64 0:2.1.13-1.fc46 fedora 1.1 MiB libfdisk aarch64 0:2.42.4-2.fc46 fedora 418.8 KiB libffi aarch64 0:3.8.0-1.fc46 fedora 159.6 KiB libfido2 aarch64 0:1.17.0-5.fc45 fedora 280.7 KiB libfsverity aarch64 0:1.7-4.fc45 fedora 68.4 KiB libgcc aarch64 0:16.2.1-2.fc46.1 fedora 222.3 KiB libgcrypt aarch64 0:1.12.4-1.fc46 fedora 1.2 MiB libgomp aarch64 0:16.2.1-2.fc46.1 fedora 592.9 KiB libgpg-error aarch64 0:1.61-2.fc45 fedora 997.9 KiB libidn2 aarch64 0:2.3.8-4.fc45 fedora 560.5 KiB libksba aarch64 0:1.8.1-1.fc46 fedora 407.8 KiB liblastlog2 aarch64 0:2.42.4-2.fc46 fedora 137.8 KiB libmount aarch64 0:2.42.4-2.fc46 fedora 420.4 KiB libnghttp2 aarch64 0:1.69.0-6.fc46 fedora 197.9 KiB libnghttp3 aarch64 0:1.18.0-1.fc45 fedora 206.8 KiB libpfm aarch64 0:4.13.0-23.fc45 fedora 252.0 KiB libpkgconf aarch64 0:2.5.1-2.fc45 fedora 134.0 KiB libpsl aarch64 0:0.23.3-1.fc46 fedora 132.5 KiB libselinux aarch64 0:3.11-5.fc46 fedora 265.2 KiB libselinux-utils aarch64 0:3.11-5.fc46 fedora 1.3 MiB libsemanage aarch64 0:3.11-4.fc46 fedora 360.3 KiB libsepol aarch64 0:3.11-2.fc45 fedora 809.9 KiB libsmartcols aarch64 0:2.42.4-2.fc46 fedora 224.4 KiB libssh aarch64 0:0.12.2-1.fc45 fedora 721.4 KiB libssh-config noarch 0:0.12.2-1.fc45 fedora 277.0 B libstdc++ aarch64 0:16.2.1-2.fc46.1 fedora 3.0 MiB libtasn1 aarch64 0:4.21.0-2.fc45 fedora 220.7 KiB libtool-ltdl aarch64 0:2.6.2-1.fc46 fedora 93.9 KiB libunistring aarch64 0:1.1-12.fc45 fedora 1.7 MiB libusb1 aarch64 0:1.0.30-2.fc45 fedora 179.7 KiB libuuid aarch64 0:2.42.4-2.fc46 fedora 69.3 KiB libverto aarch64 0:0.3.2-13.fc45 fedora 69.3 KiB libxcrypt aarch64 0:4.5.2-4.fc45 fedora 273.2 KiB libxml2 aarch64 0:2.15.4-1.fc46 fedora 1.7 MiB libzstd aarch64 0:1.5.7-6.fc45 fedora 860.3 KiB linkdupes aarch64 0:0.7.3-3.fc45 fedora 711.0 KiB lua-libs aarch64 0:5.5.1-2.fc46 fedora 330.0 KiB lua-srpm-macros noarch 0:1-18.fc45 fedora 1.3 KiB lz4-libs aarch64 0:1.10.0-5.fc45 fedora 197.3 KiB meson-srpm-macros noarch 0:1.12.1-1.fc46 fedora 1.7 KiB mpfr aarch64 0:4.2.2-4.fc45 fedora 755.4 KiB ncurses-base noarch 0:6.6-3.fc45 fedora 329.7 KiB ncurses-libs aarch64 0:6.6-3.fc45 fedora 1.2 MiB nettle aarch64 0:4.0-5.fc45 fedora 836.7 KiB ngtcp2 aarch64 0:1.22.1-3.fc45 fedora 341.1 KiB ngtcp2-crypto-ossl aarch64 0:1.22.1-3.fc45 fedora 67.5 KiB npth aarch64 0:1.8-5.fc45 fedora 93.4 KiB ocaml-srpm-macros noarch 0:11-4.fc45 fedora 1.9 KiB openblas-srpm-macros noarch 0:2-22.fc45 fedora 112.0 B openldap aarch64 0:2.6.14-1.fc46 fedora 765.1 KiB openssl-libs aarch64 1:4.0.2-3.fc46 fedora 5.8 MiB p11-kit aarch64 0:0.26.5-1.fc45 fedora 2.8 MiB p11-kit-trust aarch64 0:0.26.5-1.fc45 fedora 530.1 KiB package-notes-srpm-macros noarch 0:0.20-2.fc45 fedora 1.6 KiB pam-libs aarch64 0:1.7.2-4.fc45 fedora 222.7 KiB pcre2 aarch64 0:10.47-1.fc45.2 fedora 714.4 KiB pcre2-syntax noarch 0:10.47-1.fc45.2 fedora 281.9 KiB perl-srpm-macros noarch 0:1-65.fc45 fedora 861.0 B pkgconf aarch64 0:2.5.1-2.fc45 fedora 116.8 KiB pkgconf-m4 noarch 0:2.5.1-2.fc45 fedora 14.3 KiB pkgconf-pkg-config aarch64 0:2.5.1-2.fc45 fedora 990.0 B policycoreutils aarch64 0:3.11-2.fc45 fedora 1.5 MiB popt aarch64 0:1.19-11.fc45 fedora 144.7 KiB publicsuffix-list-dafsa noarch 0:20260624-2.fc45 fedora 71.3 KiB pyproject-srpm-macros noarch 0:1.23.2-1.fc45 fedora 3.4 KiB python-srpm-macros noarch 0:3.15-2.fc45 fedora 51.6 KiB qt5-srpm-macros noarch 0:5.15.18-3.fc45 fedora 500.0 B qt6-srpm-macros noarch 0:6.11.2-1.fc46 fedora 472.0 B readline aarch64 0:8.3-6.fc45 fedora 563.6 KiB redhat-systemd-presets noarch 0:102-3.fc45 fedora 1.0 KiB redhat-systemd-presets-common noarch 0:102-3.fc45 fedora 16.9 KiB rpm aarch64 0:6.1.0-1.fc46 fedora 3.3 MiB rpm-build-libs aarch64 0:6.1.0-1.fc46 fedora 264.0 KiB rpm-libs aarch64 0:6.1.0-1.fc46 fedora 1.1 MiB rpm-plugin-selinux aarch64 0:6.1.0-1.fc46 fedora 67.9 KiB rpm-sequoia aarch64 0:1.10.3-1.fc46 fedora 2.3 MiB rpm-sign-libs aarch64 0:6.1.0-1.fc46 fedora 67.7 KiB rust-srpm-macros noarch 0:28.5-2.fc45 fedora 5.5 KiB selinux-policy noarch 0:45.19-1.fc46 fedora 32.1 KiB selinux-policy-targeted noarch 0:45.19-1.fc46 fedora 19.0 MiB setup noarch 0:2.15.1-2.fc45 fedora 725.6 KiB sqlite-libs aarch64 0:3.53.4-1.fc45 fedora 1.6 MiB systemd-libs aarch64 0:262-1.fc46 fedora 2.8 MiB systemd-standalone-sysusers aarch64 0:262-1.fc46 fedora 979.3 KiB tpm2-tss aarch64 0:4.2.0-1.fc45 fedora 2.2 MiB tree-sitter-srpm-macros noarch 0:0.4.6-2.fc45 fedora 8.6 KiB util-linux-core aarch64 0:2.42.4-2.fc46 fedora 2.5 MiB xxhash-libs aarch64 0:0.8.4-1.fc46 fedora 85.8 KiB xz-libs aarch64 1:5.8.4-1.fc46 fedora 265.5 KiB zig-srpm-macros noarch 0:1-9.fc45 fedora 1.3 KiB zip aarch64 0:3.0-46.fc45 fedora 762.2 KiB zlib-ng-compat aarch64 0:2.3.3-6.fc45 fedora 133.4 KiB zstd aarch64 0:1.5.7-6.fc45 fedora 562.3 KiB Installing groups: Buildsystem building group Transaction Summary: Installing: 190 packages Total size of inbound packages is 69 MiB. 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libcom_err-0:1.47.4-2.fc45.aa 100% | 0.0 B/s | 0.0 B | 00m00s >>> Already downloaded [181/190] libverto-0:0.3.2-13.fc45.aarc 100% | 0.0 B/s | 0.0 B | 00m00s >>> Already downloaded [182/190] publicsuffix-list-dafsa-0:202 100% | 0.0 B/s | 0.0 B | 00m00s >>> Already downloaded [183/190] libfido2-0:1.17.0-5.fc45.aarc 100% | 0.0 B/s | 0.0 B | 00m00s >>> Already downloaded [184/190] libssh-config-0:0.12.2-1.fc45 100% | 0.0 B/s | 0.0 B | 00m00s >>> Already downloaded [185/190] libcbor-0:0.14.0-3.fc45.aarch 100% | 0.0 B/s | 0.0 B | 00m00s >>> Already downloaded [186/190] selinux-policy-targeted-0:45. 100% | 0.0 B/s | 0.0 B | 00m00s >>> Already downloaded [187/190] policycoreutils-0:3.11-2.fc45 100% | 0.0 B/s | 0.0 B | 00m00s >>> Already downloaded [188/190] selinux-policy-0:45.19-1.fc46 100% | 0.0 B/s | 0.0 B | 00m00s >>> Already downloaded [189/190] libselinux-utils-0:3.11-5.fc4 100% | 0.0 B/s | 0.0 B | 00m00s >>> Already downloaded [190/190] rpm-plugin-selinux-0:6.1.0-1. 100% | 0.0 B/s | 0.0 B | 00m00s >>> Already downloaded -------------------------------------------------------------------------------- [190/190] Total 100% | 0.0 B/s | 0.0 B | 00m00s Running transaction Importing OpenPGP key 0x91211FCE: UserID : "Fedora (46) " Fingerprint: D924B10D3E810DABDD8B56B596E7E91491211FCE From : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-46-primary The key was successfully imported. Importing OpenPGP key 0x91211FCE: UserID : "Fedora (46) " Fingerprint: D924B10D3E810DABDD8B56B596E7E91491211FCE From : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-46-primary The key was successfully imported. Importing OpenPGP key 0xF577861E: UserID : "Fedora (45) " Fingerprint: 4F50A6114CD5C6976A7F1179655A4B02F577861E From : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-45-primary The key was successfully imported. Importing OpenPGP key 0x9488FB64: UserID : "Fedora (47) " Fingerprint: B2E766FA50CA6FA2D5ED06FC09D879E09488FB64 From : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-47-primary The key was successfully imported. [ 1/192] Verify package files 100% | 748.0 B/s | 190.0 B | 00m00s >>> Running %pretrans scriptlet: filesystem-0:3.18-59.fc45.aarch64 >>> Finished %pretrans scriptlet: filesystem-0:3.18-59.fc45.aarch64 >>> [RPM] failed to open /var/lib/mock/fedora-rawhide-aarch64-1790449600.407140/root/etc/group for id/name lookup: No such file or directory [ 2/192] Prepare transaction 100% | 2.2 KiB/s | 190.0 B | 00m00s [ 3/192] Installing libgcc-0:16.2.1-2. 100% | 109.4 MiB/s | 224.0 KiB | 00m00s [ 4/192] Installing redhat-systemd-pre 100% | 0.0 B/s | 1.5 KiB | 00m00s [ 5/192] Installing redhat-systemd-pre 100% | 17.7 MiB/s | 18.1 KiB | 00m00s [ 6/192] Installing libssh-config-0:0. 100% | 0.0 B/s | 816.0 B | 00m00s [ 7/192] Installing publicsuffix-list- 100% | 70.3 MiB/s | 72.0 KiB | 00m00s [ 8/192] Installing fedora-release-ide 100% | 0.0 B/s | 920.0 B | 00m00s [ 9/192] Installing fedora-repos-rawhi 100% | 2.4 MiB/s | 2.5 KiB | 00m00s [ 10/192] Installing fedora-gpg-keys-0: 100% | 29.6 MiB/s | 181.7 KiB | 00m00s [ 11/192] Installing fedora-repos-0:46- 100% | 0.0 B/s | 5.9 KiB | 00m00s [ 12/192] Installing fedora-release-com 100% | 7.8 MiB/s | 8.0 KiB | 00m00s [ 13/192] Installing fedora-release-0:4 100% | 24.2 KiB/s | 124.0 B | 00m00s >>> Running sysusers scriptlet: setup-0:2.15.1-2.fc45.noarch >>> Finished sysusers scriptlet: setup-0:2.15.1-2.fc45.noarch >>> Scriptlet output: >>> Creating group 'adm' with GID 4. >>> Creating group 'audio' with GID 63. >>> Creating group 'cdrom' with GID 11. >>> Creating group 'clock' with GID 103. >>> Creating group 'dialout' with GID 18. >>> Creating group 'disk' with GID 6. >>> Creating group 'floppy' with GID 19. >>> Creating group 'ftp' with GID 50. >>> Creating group 'games' with GID 20. >>> Creating group 'input' with GID 104. >>> Creating group 'kmem' with GID 9. >>> Creating group 'kvm' with GID 36. >>> Creating group 'lock' with GID 54. >>> Creating group 'lp' with GID 7. >>> Creating group 'mail' with GID 12. >>> Creating group 'man' with GID 15. >>> Creating group 'mem' with GID 8. >>> Creating group 'nobody' with GID 65534. >>> Creating group 'render' with GID 105. >>> Creating group 'root' with GID 0. >>> Creating group 'sgx' with GID 106. >>> Creating group 'sys' with GID 3. >>> Creating group 'tape' with GID 33. >>> Creating group 'tty' with GID 5. >>> Creating group 'users' with GID 100. >>> Creating group 'utmp' with GID 22. >>> Creating group 'video' with GID 39. >>> Creating group 'wheel' with GID 10. >>> Creating user 'adm' (adm) with UID 3 and GID 4. >>> Creating group 'bin' with GID 1. >>> Creating user 'bin' (bin) with UID 1 and GID 1. >>> Creating group 'daemon' with GID 2. >>> Creating user 'daemon' (daemon) with UID 2 and GID 2. >>> Creating user 'ftp' (FTP User) with UID 14 and GID 50. >>> Creating user 'games' (games) with UID 12 and GID 100. >>> Creating user 'halt' (halt) with UID 7 and GID 0. >>> Creating user 'lp' (lp) with UID 4 and GID 7. >>> Creating user 'mail' (mail) with UID 8 and GID 12. >>> Creating user 'nobody' (Kernel Overflow User) with UID 65534 and GID 65534. >>> Creating user 'operator' (operator) with UID 11 and GID 0. >>> Creating user 'root' (Super User) with UID 0 and GID 0. >>> Creating user 'shutdown' (shutdown) with UID 6 and GID 0. >>> Creating user 'sync' (sync) with UID 5 and GID 0. >>> [ 14/192] Installing setup-0:2.15.1-2.f 100% | 28.6 MiB/s | 731.3 KiB | 00m00s >>> [RPM] /etc/hosts created as /etc/hosts.rpmnew [ 15/192] Installing filesystem-0:3.18- 100% | 1.7 MiB/s | 253.6 KiB | 00m00s [ 16/192] Installing pcre2-syntax-0:10. 100% | 138.8 MiB/s | 284.3 KiB | 00m00s [ 17/192] Installing gnulib-l10n-0:2024 100% | 129.3 MiB/s | 661.9 KiB | 00m00s [ 18/192] Installing coreutils-common-0 100% | 304.2 MiB/s | 11.6 MiB | 00m00s [ 19/192] Installing ncurses-base-0:6.6 100% | 49.6 MiB/s | 355.3 KiB | 00m00s [ 20/192] Installing bash-0:5.3.15-2.fc 100% | 179.4 MiB/s | 8.4 MiB | 00m00s [ 21/192] Installing glibc-common-0:2.4 100% | 44.3 MiB/s | 1.3 MiB | 00m00s [ 22/192] Installing glibc-gconv-extra- 100% | 381.3 MiB/s | 18.7 MiB | 00m00s [ 23/192] Installing glibc-0:2.44.9000- 100% | 129.2 MiB/s | 6.6 MiB | 00m00s [ 24/192] Installing ncurses-libs-0:6.6 100% | 207.6 MiB/s | 1.2 MiB | 00m00s [ 25/192] Installing glibc-minimal-lang 100% | 0.0 B/s | 124.0 B | 00m00s [ 26/192] Installing zlib-ng-compat-0:2 100% | 131.1 MiB/s | 134.3 KiB | 00m00s [ 27/192] Installing bzip2-libs-0:1.0.8 100% | 71.9 MiB/s | 73.6 KiB | 00m00s [ 28/192] Installing libgpg-error-0:1.6 100% | 35.0 MiB/s | 1.0 MiB | 00m00s [ 29/192] Installing readline-0:8.3-6.f 100% | 184.1 MiB/s | 565.7 KiB | 00m00s [ 30/192] Installing libstdc++-0:16.2.1 100% | 297.2 MiB/s | 3.0 MiB | 00m00s [ 31/192] Installing libzstd-0:1.5.7-6. 100% | 280.5 MiB/s | 861.6 KiB | 00m00s [ 32/192] Installing elfutils-libelf-0: 100% | 364.6 MiB/s | 1.5 MiB | 00m00s [ 33/192] Installing libassuan-0:2.5.7- 100% | 212.6 MiB/s | 217.7 KiB | 00m00s [ 34/192] Installing libgcrypt-0:1.12.4 100% | 240.7 MiB/s | 1.2 MiB | 00m00s [ 35/192] Installing libacl-0:2.4.0-2.f 100% | 67.1 MiB/s | 68.8 KiB | 00m00s [ 36/192] Installing gmp-1:6.3.0-6.fc45 100% | 214.9 MiB/s | 660.1 KiB | 00m00s [ 37/192] Installing systemd-libs-0:262 100% | 309.0 MiB/s | 2.8 MiB | 00m00s [ 38/192] Installing libuuid-0:2.42.4-2 100% | 68.8 MiB/s | 70.4 KiB | 00m00s [ 39/192] Installing popt-0:1.19-11.fc4 100% | 49.3 MiB/s | 151.3 KiB | 00m00s [ 40/192] Installing xz-libs-1:5.8.4-1. 100% | 260.3 MiB/s | 266.6 KiB | 00m00s [ 41/192] Installing sqlite-libs-0:3.53 100% | 261.4 MiB/s | 1.6 MiB | 00m00s [ 42/192] Installing npth-0:1.8-5.fc45. 100% | 92.3 MiB/s | 94.5 KiB | 00m00s [ 43/192] Installing elfutils-libs-0:0. 100% | 243.7 MiB/s | 748.5 KiB | 00m00s [ 44/192] Installing libblkid-0:2.42.4- 100% | 142.2 MiB/s | 291.3 KiB | 00m00s [ 45/192] Installing libsepol-0:3.11-2. 100% | 264.0 MiB/s | 810.9 KiB | 00m00s [ 46/192] Installing gnupg2-gpgconf-0:2 100% | 13.2 MiB/s | 323.9 KiB | 00m00s [ 47/192] Installing pcre2-0:10.47-1.fc 100% | 233.0 MiB/s | 715.8 KiB | 00m00s [ 48/192] Installing libselinux-0:3.11- 100% | 130.1 MiB/s | 266.5 KiB | 00m00s [ 49/192] Installing grep-0:3.12-4.fc45 100% | 35.8 MiB/s | 1.0 MiB | 00m00s [ 50/192] Installing sed-0:4.10-2.fc45. 100% | 29.9 MiB/s | 886.9 KiB | 00m00s [ 51/192] Installing findutils-1:4.11.0 100% | 65.0 MiB/s | 2.0 MiB | 00m00s [ 52/192] Installing libxcrypt-0:4.5.2- 100% | 134.7 MiB/s | 275.9 KiB | 00m00s [ 53/192] Installing json-c-0:0.18-9.fc 100% | 136.5 MiB/s | 139.8 KiB | 00m00s [ 54/192] Installing libtasn1-0:4.21.0- 100% | 217.3 MiB/s | 222.5 KiB | 00m00s [ 55/192] Installing libunistring-0:1.1 100% | 291.0 MiB/s | 1.7 MiB | 00m00s [ 56/192] Installing libidn2-0:2.3.8-4. 100% | 61.5 MiB/s | 566.6 KiB | 00m00s [ 57/192] Installing crypto-policies-0: 100% | 19.5 MiB/s | 159.5 KiB | 00m00s [ 58/192] Installing xz-1:5.8.4-1.fc46. 100% | 45.6 MiB/s | 1.5 MiB | 00m00s [ 59/192] Installing libmount-0:2.42.4- 100% | 205.8 MiB/s | 421.5 KiB | 00m00s [ 60/192] Installing gnupg2-verify-0:2. 100% | 14.9 MiB/s | 365.7 KiB | 00m00s [ 61/192] Installing mpfr-0:4.2.2-4.fc4 100% | 184.8 MiB/s | 757.1 KiB | 00m00s [ 62/192] Installing gawk-0:5.4.1-1.fc4 100% | 88.7 MiB/s | 2.9 MiB | 00m00s [ 63/192] Installing dwz-0:0.17-3.fc45. 100% | 13.2 MiB/s | 324.0 KiB | 00m00s [ 64/192] Installing libksba-0:1.8.1-1. 100% | 133.6 MiB/s | 410.3 KiB | 00m00s [ 65/192] Installing unzip-0:6.0-71.fc4 100% | 18.5 MiB/s | 473.4 KiB | 00m00s [ 66/192] Installing file-libs-0:5.48-3 100% | 588.6 MiB/s | 12.4 MiB | 00m00s [ 67/192] Installing file-0:5.48-3.fc46 100% | 5.8 MiB/s | 143.4 KiB | 00m00s [ 68/192] Installing diffutils-0:3.12-6 100% | 54.1 MiB/s | 1.6 MiB | 00m00s [ 69/192] Installing libattr-0:2.6.0-2. 100% | 67.7 MiB/s | 69.3 KiB | 00m00s [ 70/192] Installing libeconf-0:0.7.9-4 100% | 80.6 MiB/s | 82.5 KiB | 00m00s [ 71/192] Installing libcap-ng-0:0.9.6- 100% | 159.0 MiB/s | 162.8 KiB | 00m00s [ 72/192] Installing audit-libs-0:4.2.1 100% | 238.9 MiB/s | 489.3 KiB | 00m00s [ 73/192] Installing pam-libs-0:1.7.2-4 100% | 109.9 MiB/s | 225.1 KiB | 00m00s [ 74/192] Installing libcap-0:2.78-2.fc 100% | 20.1 MiB/s | 513.5 KiB | 00m00s [ 75/192] Installing libsemanage-0:3.11 100% | 176.8 MiB/s | 362.0 KiB | 00m00s [ 76/192] Installing libsmartcols-0:2.4 100% | 220.1 MiB/s | 225.4 KiB | 00m00s [ 77/192] Installing alternatives-0:1.3 100% | 3.9 MiB/s | 91.7 KiB | 00m00s [ 78/192] Installing lua-libs-0:5.5.1-2 100% | 161.9 MiB/s | 331.5 KiB | 00m00s [ 79/192] Installing libffi-0:3.8.0-1.f 100% | 157.2 MiB/s | 161.0 KiB | 00m00s [ 80/192] Installing p11-kit-0:0.26.5-1 100% | 77.8 MiB/s | 2.8 MiB | 00m00s [ 81/192] Installing p11-kit-trust-0:0. 100% | 17.9 MiB/s | 531.9 KiB | 00m00s [ 82/192] Installing ngtcp2-0:1.22.1-3. 100% | 111.5 MiB/s | 342.7 KiB | 00m00s [ 83/192] Installing util-linux-core-0: 100% | 74.6 MiB/s | 2.5 MiB | 00m00s [ 84/192] Installing liblastlog2-0:2.42 100% | 27.3 MiB/s | 139.8 KiB | 00m00s [ 85/192] Installing zip-0:3.0-46.fc45. 100% | 26.7 MiB/s | 766.1 KiB | 00m00s [ 86/192] Installing gnupg2-keyboxd-0:2 100% | 45.8 MiB/s | 234.5 KiB | 00m00s [ 87/192] Installing libpsl-0:0.23.3-1. 100% | 65.2 MiB/s | 133.6 KiB | 00m00s [ 88/192] Installing tar-2:1.35-9.fc45. 100% | 85.9 MiB/s | 3.0 MiB | 00m00s [ 89/192] Installing linkdupes-0:0.7.3- 100% | 26.8 MiB/s | 712.4 KiB | 00m00s [ 90/192] Installing libselinux-utils-0 100% | 48.5 MiB/s | 1.4 MiB | 00m00s [ 91/192] Installing libfdisk-0:2.42.4- 100% | 205.0 MiB/s | 419.9 KiB | 00m00s [ 92/192] Installing fips-provider-0:1. 100% | 315.8 MiB/s | 3.8 MiB | 00m00s [ 93/192] Installing openssl-libs-1:4.0 100% | 305.9 MiB/s | 5.8 MiB | 00m00s [ 94/192] Installing coreutils-0:9.12-1 100% | 165.5 MiB/s | 8.6 MiB | 00m00s [ 95/192] Installing ca-certificates-0: 100% | 1.5 MiB/s | 2.5 MiB | 00m02s [ 96/192] Installing util-linux-0:2.42. 100% | 123.0 MiB/s | 7.0 MiB | 00m00s [ 97/192] Installing policycoreutils-0: 100% | 38.2 MiB/s | 1.5 MiB | 00m00s [ 98/192] Installing selinux-policy-0:4 100% | 1.9 MiB/s | 34.5 KiB | 00m00s [ 99/192] Installing selinux-policy-tar 100% | 134.0 MiB/s | 15.1 MiB | 00m00s [100/192] Installing gzip-0:1.14-4.fc45 100% | 16.0 MiB/s | 443.1 KiB | 00m00s [101/192] Installing rpm-sequoia-0:1.10 100% | 286.5 MiB/s | 2.3 MiB | 00m00s [102/192] Installing libfsverity-0:1.7- 100% | 67.8 MiB/s | 69.4 KiB | 00m00s [103/192] Installing libevent-0:2.1.13- 100% | 271.7 MiB/s | 1.1 MiB | 00m00s [104/192] Installing ngtcp2-crypto-ossl 100% | 66.7 MiB/s | 68.3 KiB | 00m00s [105/192] Installing libusb1-0:1.0.30-2 100% | 14.8 MiB/s | 181.4 KiB | 00m00s >>> Running sysusers scriptlet: tpm2-tss-0:4.2.0-1.fc45.aarch64 >>> Finished sysusers scriptlet: tpm2-tss-0:4.2.0-1.fc45.aarch64 >>> Scriptlet output: >>> Creating group 'tss' with GID 59. >>> Creating user 'tss' (Account used for TPM access) with UID 59 and GID 59. >>> [106/192] Installing tpm2-tss-0:4.2.0-1 100% | 248.3 MiB/s | 2.2 MiB | 00m00s [107/192] Installing ima-evm-utils-libs 100% | 91.7 MiB/s | 93.9 KiB | 00m00s [108/192] Installing gnupg2-gpg-agent-0 100% | 26.0 MiB/s | 850.8 KiB | 00m00s [109/192] Installing nettle-0:4.0-5.fc4 100% | 205.0 MiB/s | 839.8 KiB | 00m00s [110/192] Installing gnutls-0:3.8.13-5. 100% | 285.4 MiB/s | 3.7 MiB | 00m00s [111/192] Installing zstd-0:1.5.7-6.fc4 100% | 20.5 MiB/s | 565.9 KiB | 00m00s [112/192] Installing libxml2-0:2.15.4-1 100% | 57.4 MiB/s | 1.7 MiB | 00m00s [113/192] Installing bzip2-0:1.0.8-24.f 100% | 6.9 MiB/s | 175.7 KiB | 00m00s [114/192] Installing add-determinism-0: 100% | 63.5 MiB/s | 1.9 MiB | 00m00s [115/192] Installing build-reproducibil 100% | 1.5 MiB/s | 1.5 KiB | 00m00s [116/192] Installing cpio-0:2.15-10.fc4 100% | 37.8 MiB/s | 1.1 MiB | 00m00s [117/192] Installing ed-0:1.22.6-1.fc46 100% | 6.6 MiB/s | 161.2 KiB | 00m00s [118/192] Installing patch-0:2.8-5.fc45 100% | 10.3 MiB/s | 263.9 KiB | 00m00s [119/192] Installing jansson-0:2.14-5.f 100% | 92.2 MiB/s | 94.4 KiB | 00m00s [120/192] Installing libpfm-0:4.13.0-23 100% | 247.4 MiB/s | 253.3 KiB | 00m00s [121/192] Installing lz4-libs-0:1.10.0- 100% | 193.8 MiB/s | 198.4 KiB | 00m00s [122/192] Installing libarchive-0:3.8.9 100% | 238.7 MiB/s | 977.6 KiB | 00m00s [123/192] Installing libgomp-0:16.2.1-2 100% | 290.2 MiB/s | 594.3 KiB | 00m00s [124/192] Installing libpkgconf-0:2.5.1 100% | 132.0 MiB/s | 135.2 KiB | 00m00s [125/192] Installing pkgconf-0:2.5.1-2. 100% | 4.9 MiB/s | 119.3 KiB | 00m00s [126/192] Installing libtool-ltdl-0:2.6 100% | 92.8 MiB/s | 95.0 KiB | 00m00s [127/192] Installing gdbm-libs-1:1.23-1 100% | 230.0 MiB/s | 235.5 KiB | 00m00s [128/192] Installing cyrus-sasl-lib-0:2 100% | 75.5 MiB/s | 2.4 MiB | 00m00s [129/192] Installing openldap-0:2.6.14- 100% | 187.7 MiB/s | 768.9 KiB | 00m00s [130/192] Installing gnupg2-dirmngr-0:2 100% | 20.4 MiB/s | 648.9 KiB | 00m00s [131/192] Installing gnupg2-0:2.4.9-18. 100% | 143.5 MiB/s | 6.5 MiB | 00m00s [132/192] Installing gpgverify-0:2.2-5. 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forge-srpm-macros- 100% | 39.3 MiB/s | 40.3 KiB | 00m00s [185/192] Installing fonts-srpm-macros- 100% | 55.7 MiB/s | 57.0 KiB | 00m00s [186/192] Installing go-srpm-macros-0:3 100% | 61.6 MiB/s | 63.0 KiB | 00m00s [187/192] Installing R-srpm-macros-0:1. 100% | 4.3 MiB/s | 4.4 KiB | 00m00s [188/192] Installing python-srpm-macros 100% | 51.7 MiB/s | 52.9 KiB | 00m00s [189/192] Installing rpm-plugin-selinux 100% | 67.3 MiB/s | 68.9 KiB | 00m00s [190/192] Installing which-0:2.25-2.fc4 100% | 4.7 MiB/s | 125.8 KiB | 00m00s [191/192] Installing shadow-utils-2:4.2 100% | 88.9 MiB/s | 4.4 MiB | 00m00s [192/192] Installing info-0:7.3-3.fc45. 100% | 51.2 KiB/s | 424.8 KiB | 00m08s Complete! Finish: installing minimal buildroot with dnf5 Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: R-srpm-macros-1.3.7-3.fc45.noarch add-determinism-0.7.3-3.fc45.aarch64 alternatives-1.33-6.fc45.aarch64 ansible-srpm-macros-1-22.fc45.noarch audit-libs-4.2.1-2.fc45.aarch64 bash-5.3.15-2.fc45.aarch64 binutils-2.47.50-11.fc46.aarch64 build-reproducibility-srpm-macros-0.7.3-3.fc45.noarch bzip2-1.0.8-24.fc45.aarch64 bzip2-libs-1.0.8-24.fc45.aarch64 ca-certificates-2026.2.90_v9.0.317-1.fc46.noarch cmake-srpm-macros-4.3.0-5.fc45.noarch coreutils-9.12-1.fc46.aarch64 coreutils-common-9.12-1.fc46.aarch64 cpio-2.15-10.fc45.aarch64 crypto-policies-20260713-2.gitc42da77.fc45.noarch curl-8.23.0~rc2-1.fc46.aarch64 cyrus-sasl-lib-2.1.28-37.fc45.aarch64 debugedit-5.3-3.fc45.aarch64 diffutils-3.12-6.fc45.aarch64 dwz-0.17-3.fc45.aarch64 ed-1.22.6-1.fc46.aarch64 efi-srpm-macros-6-9.fc45.noarch elfutils-0.196-1.fc46.aarch64 elfutils-debuginfod-client-0.196-1.fc46.aarch64 elfutils-libelf-0.196-1.fc46.aarch64 elfutils-libs-0.196-1.fc46.aarch64 erlang-srpm-macros-0.3.11-2.fc45.noarch fedora-gpg-keys-46-0.3.noarch fedora-release-46-0.1.noarch fedora-release-common-46-0.1.noarch fedora-release-identity-basic-46-0.1.noarch fedora-repos-46-0.3.noarch fedora-repos-rawhide-46-0.3.noarch file-5.48-3.fc46.aarch64 file-libs-5.48-3.fc46.aarch64 filesystem-3.18-59.fc45.aarch64 filesystem-srpm-macros-3.18-59.fc45.noarch findutils-4.11.0-2.fc45.aarch64 fips-provider-1.5.3-1.fc46.aarch64 fonts-srpm-macros-5.0.0-4.fc45.noarch forge-srpm-macros-0.4.0-5.fc45.noarch fpc-srpm-macros-1.3-17.fc45.noarch gap-srpm-macros-2-3.fc45.noarch gawk-5.4.1-1.fc45.aarch64 gdb-minimal-17.2-6.fc46.aarch64 gdbm-libs-1.23-12.fc45.aarch64 ghc-srpm-macros-1.10-2.fc45.noarch glibc-2.44.9000-2.fc46.aarch64 glibc-common-2.44.9000-2.fc46.aarch64 glibc-gconv-extra-2.44.9000-2.fc46.aarch64 glibc-minimal-langpack-2.44.9000-2.fc46.aarch64 gmp-6.3.0-6.fc45.aarch64 gnat-srpm-macros-7-3.fc45.noarch gnome-srpm-macros-1.0-2.fc45.noarch gnulib-l10n-20241231-4.fc45.noarch gnupg2-2.4.9-18.fc45.aarch64 gnupg2-dirmngr-2.4.9-18.fc45.aarch64 gnupg2-gpg-agent-2.4.9-18.fc45.aarch64 gnupg2-gpgconf-2.4.9-18.fc45.aarch64 gnupg2-keyboxd-2.4.9-18.fc45.aarch64 gnupg2-verify-2.4.9-18.fc45.aarch64 gnutls-3.8.13-5.fc46.aarch64 go-srpm-macros-3.8.0-3.fc45.noarch gpg-pubkey-4f50a6114cd5c6976a7f1179655a4b02f577861e-6888bc98 gpg-pubkey-b2e766fa50ca6fa2d5ed06fc09d879e09488fb64-6a6b46b4 gpg-pubkey-d924b10d3e810dabdd8b56b596e7e91491211fce-697c9899 gpgverify-2.2-5.fc45.noarch grep-3.12-4.fc45.aarch64 gzip-1.14-4.fc45.aarch64 ima-evm-utils-libs-1.6.2-12.fc45.aarch64 info-7.3-3.fc45.aarch64 jansson-2.14-5.fc45.aarch64 java-srpm-macros-1-9.fc45.noarch json-c-0.18-9.fc45.aarch64 kernel-srpm-macros-1.0-30.fc45.noarch keyutils-libs-1.6.3-8.fc45.aarch64 krb5-libs-1.22.2-9.fc45.aarch64 libacl-2.4.0-2.fc45.aarch64 libarchive-3.8.9-2.fc46.aarch64 libassuan-2.5.7-6.fc45.aarch64 libattr-2.6.0-2.fc45.aarch64 libblkid-2.42.4-2.fc46.aarch64 libbrotli-1.2.0-6.fc45.aarch64 libcap-2.78-2.fc45.aarch64 libcap-ng-0.9.6-1.fc46.aarch64 libcbor-0.14.0-3.fc45.aarch64 libcom_err-1.47.4-2.fc45.aarch64 libcurl-8.23.0~rc2-1.fc46.aarch64 libeconf-0.7.9-4.fc45.aarch64 libevent-2.1.13-1.fc46.aarch64 libfdisk-2.42.4-2.fc46.aarch64 libffi-3.8.0-1.fc46.aarch64 libfido2-1.17.0-5.fc45.aarch64 libfsverity-1.7-4.fc45.aarch64 libgcc-16.2.1-2.fc46.1.aarch64 libgcrypt-1.12.4-1.fc46.aarch64 libgomp-16.2.1-2.fc46.1.aarch64 libgpg-error-1.61-2.fc45.aarch64 libidn2-2.3.8-4.fc45.aarch64 libksba-1.8.1-1.fc46.aarch64 liblastlog2-2.42.4-2.fc46.aarch64 libmount-2.42.4-2.fc46.aarch64 libnghttp2-1.69.0-6.fc46.aarch64 libnghttp3-1.18.0-1.fc45.aarch64 libpfm-4.13.0-23.fc45.aarch64 libpkgconf-2.5.1-2.fc45.aarch64 libpsl-0.23.3-1.fc46.aarch64 libselinux-3.11-5.fc46.aarch64 libselinux-utils-3.11-5.fc46.aarch64 libsemanage-3.11-4.fc46.aarch64 libsepol-3.11-2.fc45.aarch64 libsmartcols-2.42.4-2.fc46.aarch64 libssh-0.12.2-1.fc45.aarch64 libssh-config-0.12.2-1.fc45.noarch libstdc++-16.2.1-2.fc46.1.aarch64 libtasn1-4.21.0-2.fc45.aarch64 libtool-ltdl-2.6.2-1.fc46.aarch64 libunistring-1.1-12.fc45.aarch64 libusb1-1.0.30-2.fc45.aarch64 libuuid-2.42.4-2.fc46.aarch64 libverto-0.3.2-13.fc45.aarch64 libxcrypt-4.5.2-4.fc45.aarch64 libxml2-2.15.4-1.fc46.aarch64 libzstd-1.5.7-6.fc45.aarch64 linkdupes-0.7.3-3.fc45.aarch64 lua-libs-5.5.1-2.fc46.aarch64 lua-srpm-macros-1-18.fc45.noarch lz4-libs-1.10.0-5.fc45.aarch64 meson-srpm-macros-1.12.1-1.fc46.noarch mpfr-4.2.2-4.fc45.aarch64 ncurses-base-6.6-3.fc45.noarch ncurses-libs-6.6-3.fc45.aarch64 nettle-4.0-5.fc45.aarch64 ngtcp2-1.22.1-3.fc45.aarch64 ngtcp2-crypto-ossl-1.22.1-3.fc45.aarch64 npth-1.8-5.fc45.aarch64 ocaml-srpm-macros-11-4.fc45.noarch openblas-srpm-macros-2-22.fc45.noarch openldap-2.6.14-1.fc46.aarch64 openssl-libs-4.0.2-3.fc46.aarch64 p11-kit-0.26.5-1.fc45.aarch64 p11-kit-trust-0.26.5-1.fc45.aarch64 package-notes-srpm-macros-0.20-2.fc45.noarch pam-libs-1.7.2-4.fc45.aarch64 patch-2.8-5.fc45.aarch64 pcre2-10.47-1.fc45.2.aarch64 pcre2-syntax-10.47-1.fc45.2.noarch perl-srpm-macros-1-65.fc45.noarch pkgconf-2.5.1-2.fc45.aarch64 pkgconf-m4-2.5.1-2.fc45.noarch pkgconf-pkg-config-2.5.1-2.fc45.aarch64 policycoreutils-3.11-2.fc45.aarch64 popt-1.19-11.fc45.aarch64 publicsuffix-list-dafsa-20260624-2.fc45.noarch pyproject-srpm-macros-1.23.2-1.fc45.noarch python-srpm-macros-3.15-2.fc45.noarch qt5-srpm-macros-5.15.18-3.fc45.noarch qt6-srpm-macros-6.11.2-1.fc46.noarch readline-8.3-6.fc45.aarch64 redhat-rpm-config-345-4.fc46.noarch redhat-systemd-presets-102-3.fc45.noarch redhat-systemd-presets-common-102-3.fc45.noarch rpm-6.1.0-1.fc46.aarch64 rpm-build-6.1.0-1.fc46.aarch64 rpm-build-libs-6.1.0-1.fc46.aarch64 rpm-libs-6.1.0-1.fc46.aarch64 rpm-plugin-selinux-6.1.0-1.fc46.aarch64 rpm-sequoia-1.10.3-1.fc46.aarch64 rpm-sign-libs-6.1.0-1.fc46.aarch64 rust-srpm-macros-28.5-2.fc45.noarch sed-4.10-2.fc45.aarch64 selinux-policy-45.19-1.fc46.noarch selinux-policy-targeted-45.19-1.fc46.noarch setup-2.15.1-2.fc45.noarch shadow-utils-4.20.0-1.fc45.aarch64 sqlite-libs-3.53.4-1.fc45.aarch64 systemd-libs-262-1.fc46.aarch64 systemd-standalone-sysusers-262-1.fc46.aarch64 tar-1.35-9.fc45.aarch64 tpm2-tss-4.2.0-1.fc45.aarch64 tree-sitter-srpm-macros-0.4.6-2.fc45.noarch unzip-6.0-71.fc45.aarch64 util-linux-2.42.4-2.fc46.aarch64 util-linux-core-2.42.4-2.fc46.aarch64 which-2.25-2.fc45.aarch64 xxhash-libs-0.8.4-1.fc46.aarch64 xz-5.8.4-1.fc46.aarch64 xz-libs-5.8.4-1.fc46.aarch64 zig-srpm-macros-1-9.fc45.noarch zip-3.0-46.fc45.aarch64 zlib-ng-compat-2.3.3-6.fc45.aarch64 zstd-1.5.7-6.fc45.aarch64 Start: buildsrpm Start: rpmbuild -bs Building target platforms: aarch64 Building for target aarch64 setting SOURCE_DATE_EPOCH=1779148800 Wrote: /builddir/build/SRPMS/ucsc-kent-utils-492-1.fc46.src.rpm Finish: rpmbuild -bs INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-rawhide-aarch64-1790449600.407140/root/var/log/dnf5.log INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz /bin/tar: Removing leading `/' from member names Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-k7pos9ec/ucsc-kent-utils/ucsc-kent-utils.spec) Config(child) 0 minutes 21 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot INFO: Start(/var/lib/copr-rpmbuild/results/ucsc-kent-utils-492-1.fc46.src.rpm) Config(fedora-rawhide-aarch64) Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1790449600.407140/root. INFO: reusing tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1790449600.407140/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-1790449600.407140/root. INFO: calling preinit hooks INFO: enabled root cache Start: unpacking root cache Finish: unpacking root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin INFO: Buildroot is handled by package management downloaded with a bootstrap image: rpm-6.1.0-1.fc46.aarch64 rpm-sequoia-1.10.3-1.fc46.aarch64 dnf5-5.4.6.0-1.fc46.aarch64 dnf5-plugins-5.4.6.0-1.fc46.aarch64 Finish: chroot init Start: build phase for ucsc-kent-utils-492-1.fc46.src.rpm Start: build setup for ucsc-kent-utils-492-1.fc46.src.rpm Building target platforms: aarch64 Building for target aarch64 setting SOURCE_DATE_EPOCH=1779148800 Wrote: /builddir/build/SRPMS/ucsc-kent-utils-492-1.fc46.src.rpm Updating and loading repositories: fedora 100% | 214.6 KiB/s | 7.7 KiB | 00m00s Copr repository 100% | 152.6 KiB/s | 1.5 KiB | 00m00s Repositories loaded. Package Arch Version Repository Size Installing: bzip2-devel aarch64 0:1.0.8-24.fc45 fedora 309.8 KiB gcc aarch64 0:16.2.1-2.fc46.1 fedora 112.5 MiB gcc-c++ aarch64 0:16.2.1-2.fc46.1 fedora 44.8 MiB libcurl-devel aarch64 0:8.23.0~rc2-1.fc46 fedora 1.4 MiB libpng-devel aarch64 2:1.6.58-2.fc45 fedora 978.0 KiB libuuid-devel aarch64 0:2.42.4-2.fc46 fedora 41.0 KiB make aarch64 1:4.4.1-13.fc45 fedora 1.8 MiB mariadb-connector-c-devel aarch64 0:3.4.9-3.fc45 fedora 246.9 KiB openssl-devel aarch64 1:4.0.2-3.fc46 fedora 4.6 MiB python3-devel aarch64 0:3.15.0~rc2-1.fc46 fedora 2.5 MiB xz-devel aarch64 1:5.8.4-1.fc46 fedora 258.8 KiB zlib-ng-compat-devel aarch64 0:2.3.3-6.fc45 fedora 107.0 KiB Installing dependencies: annobin-docs noarch 0:13.31-1.fc46 fedora 99.7 KiB annobin-plugin-gcc aarch64 0:13.31-1.fc46 fedora 728.2 KiB brotli aarch64 0:1.2.0-6.fc45 fedora 69.5 KiB brotli-devel aarch64 0:1.2.0-6.fc45 fedora 65.9 KiB cmake-filesystem aarch64 0:4.3.0-5.fc45 fedora 0.0 B cpp aarch64 0:16.2.1-2.fc46.1 fedora 40.8 MiB expat aarch64 0:2.8.3-1.fc46 fedora 378.4 KiB gcc-plugin-annobin aarch64 0:16.2.1-2.fc46.1 fedora 69.1 KiB glibc-devel aarch64 0:2.44.9000-2.fc46 fedora 2.3 MiB kernel-headers aarch64 0:7.3.0-0.rc4.38.fc46 fedora 6.9 MiB keyutils-libs-devel aarch64 0:1.6.3-8.fc45 fedora 48.2 KiB krb5-devel aarch64 0:1.22.2-9.fc45 fedora 709.9 KiB libasan aarch64 0:16.2.1-2.fc46.1 fedora 1.5 MiB libatomic aarch64 0:16.2.1-2.fc46.1 fedora 77.7 KiB libcom_err-devel aarch64 0:1.47.4-2.fc45 fedora 16.7 KiB libidn2-devel aarch64 0:2.3.8-4.fc45 fedora 152.1 KiB libkadm5 aarch64 0:1.22.2-9.fc45 fedora 266.0 KiB libmpc aarch64 0:1.4.1-2.fc45 fedora 216.8 KiB libnghttp2-devel aarch64 0:1.69.0-6.fc46 fedora 288.0 KiB libnghttp3-devel aarch64 0:1.18.0-1.fc45 fedora 119.4 KiB libpng aarch64 2:1.6.58-2.fc45 fedora 269.7 KiB libpsl-devel aarch64 0:0.23.3-1.fc46 fedora 111.5 KiB libselinux-devel aarch64 0:3.11-5.fc46 fedora 121.9 KiB libsepol-devel aarch64 0:3.11-2.fc45 fedora 120.7 KiB libssh-devel aarch64 0:0.12.2-1.fc45 fedora 204.2 KiB libstdc++-devel aarch64 0:16.2.1-2.fc46.1 fedora 40.4 MiB libubsan aarch64 0:16.2.1-2.fc46.1 fedora 475.9 KiB libverto-devel aarch64 0:0.3.2-13.fc45 fedora 25.7 KiB libxcrypt-devel aarch64 0:4.5.2-4.fc45 fedora 31.0 KiB libzstd-devel aarch64 0:1.5.7-6.fc45 fedora 217.6 KiB mariadb-connector-c aarch64 0:3.4.9-3.fc45 fedora 993.9 KiB mariadb-connector-c-config noarch 0:3.4.9-3.fc45 fedora 26.4 KiB mpdecimal aarch64 0:4.0.1-4.fc45 fedora 281.1 KiB ngtcp2-crypto-ossl-devel aarch64 0:1.22.1-3.fc45 fedora 7.5 KiB ngtcp2-devel aarch64 0:1.22.1-3.fc45 fedora 262.8 KiB pcre2-devel aarch64 0:10.47-1.fc45.2 fedora 2.1 MiB pcre2-utf16 aarch64 0:10.47-1.fc45.2 fedora 582.9 KiB pcre2-utf32 aarch64 0:10.47-1.fc45.2 fedora 582.9 KiB publicsuffix-list noarch 0:20260624-2.fc45 fedora 345.9 KiB pyproject-rpm-macros noarch 0:1.23.2-1.fc45 fedora 156.3 KiB python-pip-wheel noarch 0:26.2.1-1.fc46 fedora 1.3 MiB python-rpm-macros noarch 0:3.15-2.fc45 fedora 28.0 KiB python3 aarch64 0:3.15.0~rc2-1.fc46 fedora 84.8 KiB python3-libs aarch64 0:3.15.0~rc2-1.fc46 fedora 49.8 MiB python3-packaging noarch 0:26.3-1.fc46 fedora 1.3 MiB python3-rpm-generators noarch 0:14-35.fc46 fedora 81.9 KiB python3-rpm-macros noarch 0:3.15-2.fc45 fedora 6.5 KiB tzdata noarch 0:2026c-2.fc46 fedora 1.2 MiB Transaction Summary: Installing: 60 packages Total size of inbound packages is 101 MiB. Need to download 5 MiB. After this operation, 325 MiB extra will be used (install 325 MiB, remove 0 B). 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krb5-devel-0:1.22.2-9.fc45.aarc 100% | 842.4 KiB/s | 143.2 KiB | 00m00s [44/60] mariadb-connector-c-devel-0:3.4 100% | 315.5 KiB/s | 60.3 KiB | 00m00s [45/60] libcurl-devel-0:8.23.0~rc2-1.fc 100% | 4.4 MiB/s | 1.0 MiB | 00m00s [46/60] libidn2-devel-0:2.3.8-4.fc45.aa 100% | 503.4 KiB/s | 65.9 KiB | 00m00s [47/60] libnghttp2-devel-0:1.69.0-6.fc4 100% | 448.1 KiB/s | 54.2 KiB | 00m00s [48/60] libnghttp3-devel-0:1.18.0-1.fc4 100% | 231.8 KiB/s | 27.8 KiB | 00m00s [49/60] libpsl-devel-0:0.23.3-1.fc46.aa 100% | 405.6 KiB/s | 33.7 KiB | 00m00s [50/60] libssh-devel-0:0.12.2-1.fc45.aa 100% | 279.5 KiB/s | 47.2 KiB | 00m00s [51/60] ngtcp2-crypto-ossl-devel-0:1.22 100% | 70.1 KiB/s | 11.5 KiB | 00m00s [52/60] ngtcp2-devel-0:1.22.1-3.fc45.aa 100% | 315.3 KiB/s | 48.6 KiB | 00m00s [53/60] mariadb-connector-c-0:3.4.9-3.f 100% | 2.0 MiB/s | 202.8 KiB | 00m00s [54/60] keyutils-libs-devel-0:1.6.3-8.f 100% | 613.5 KiB/s | 63.2 KiB | 00m00s [55/60] libcom_err-devel-0:1.47.4-2.fc4 100% | 104.1 KiB/s | 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Building target platforms: aarch64 Building for target aarch64 setting SOURCE_DATE_EPOCH=1779148800 Wrote: /builddir/build/SRPMS/ucsc-kent-utils-492-1.fc46.src.rpm Updating and loading repositories: fedora 100% | 220.7 KiB/s | 7.7 KiB | 00m00s Copr repository 100% | 169.6 KiB/s | 1.5 KiB | 00m00s Repositories loaded. Package "bzip2-devel-1.0.8-24.fc45.aarch64" is already installed. Package "gcc-16.2.1-2.fc46.1.aarch64" is already installed. Package "gcc-c++-16.2.1-2.fc46.1.aarch64" is already installed. Package "libcurl-devel-8.23.0~rc2-1.fc46.aarch64" is already installed. Package "libpng-devel-2:1.6.58-2.fc45.aarch64" is already installed. Package "libuuid-devel-2.42.4-2.fc46.aarch64" is already installed. Package "make-1:4.4.1-13.fc45.aarch64" is already installed. Package "mariadb-connector-c-devel-3.4.9-3.fc45.aarch64" is already installed. Package "openssl-devel-1:4.0.2-3.fc46.aarch64" is already installed. Package "python3-devel-3.15.0~rc2-1.fc46.aarch64" is already installed. Package "xz-devel-1:5.8.4-1.fc46.aarch64" is already installed. Package "zlib-ng-compat-devel-2.3.3-6.fc45.aarch64" is already installed. Nothing to do. Finish: build setup for ucsc-kent-utils-492-1.fc46.src.rpm Start: rpmbuild ucsc-kent-utils-492-1.fc46.src.rpm Building target platforms: aarch64 Building for target aarch64 setting SOURCE_DATE_EPOCH=1779148800 Executing(mkbuilddir): /bin/sh -e /var/tmp/rpm-tmp.DiUoZG Creating(rpmbuild.env): /builddir/build/BUILD/ucsc-kent-utils-492-build/rpmbuild.env RPM_SOURCE_DIR="/builddir/build/SOURCES" RPM_BUILD_DIR="/builddir/build/BUILD/ucsc-kent-utils-492-build" RPM_OPT_FLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer" RPM_LD_FLAGS="-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes " RPM_ARCH="aarch64" RPM_OS="linux" RPM_BUILD_NCPUS="4" RPM_SPECPARTS_DIR="/builddir/build/BUILD/ucsc-kent-utils-492-build/SPECPARTS" export RPM_SOURCE_DIR RPM_BUILD_DIR RPM_OPT_FLAGS RPM_ARCH RPM_OS RPM_BUILD_NCPUS RPM_SPECPARTS_DIR RPM_LD_FLAGS RPM_DOC_DIR="/usr/share/doc" export RPM_DOC_DIR RPM_PACKAGE_NAME="ucsc-kent-utils" RPM_PACKAGE_VERSION="492" RPM_PACKAGE_RELEASE="1.fc46" export RPM_PACKAGE_NAME RPM_PACKAGE_VERSION RPM_PACKAGE_RELEASE LANG=C.UTF-8 export LANG unset CDPATH DISPLAY ||: unset DEBUGINFOD_URLS ||: unset RPM_CONFIG_DIR ||: RPM_BUILD_ROOT="/builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT" export RPM_BUILD_ROOT PKG_CONFIG_PATH="${PKG_CONFIG_PATH}:/usr/lib64/pkgconfig:/usr/share/pkgconfig" export PKG_CONFIG_PATH CONFIG_SITE=${CONFIG_SITE:-NONE} export CONFIG_SITE Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.6MaThE + umask 022 + cd /builddir/build/BUILD/ucsc-kent-utils-492-build + cd /builddir/build/BUILD/ucsc-kent-utils-492-build + rm -rf kent-core-492 + /usr/bin/rpmuncompress -x /builddir/build/SOURCES/kent-core-492.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + cd kent-core-492 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + /usr/bin/rpmuncompress /builddir/build/SOURCES/ucsc-kent-utils-skip-broken-tools.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.ePE8Ey + umask 022 + cd /builddir/build/BUILD/ucsc-kent-utils-492-build + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd kent-core-492 ++ uname -m ++ sed 's/-.*//' + export MACHTYPE=aarch64 + MACHTYPE=aarch64 ++ pwd + export BINDIR=/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin + BINDIR=/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin + mkdir -p /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin + export MYSQLINC=/usr/include/mysql + MYSQLINC=/usr/include/mysql + export 'MYSQLLIBS=-lmariadb -lz -lpthread -lm -lssl -lcrypto' + MYSQLLIBS='-lmariadb -lz -lpthread -lm -lssl -lcrypto' + make -j1 BINDIR=/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin MYSQLINC=/usr/include/mysql 'MYSQLLIBS=-lmariadb -lz -lpthread -lm -lssl -lcrypto' mkdir -p bin cd src && make utils USE_HAL=0 USE_FREETYPE=0 USE_HIC=0 BINDIR=/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin make[1]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src' make -C lib make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/lib' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o aliType.o -c aliType.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoAssembly.o -c annoAssembly.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoFilter.o -c annoFilter.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoFormatter.o -c annoFormatter.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoFormatTab.o -c annoFormatTab.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoGrator.o -c annoGrator.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoGrateWig.o -c annoGrateWig.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoGratorQuery.o -c annoGratorQuery.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoOption.o -c annoOption.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoRow.o -c annoRow.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoStreamer.o -c annoStreamer.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoStreamBigBed.o -c annoStreamBigBed.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoStreamBigWig.o -c annoStreamBigWig.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoStreamTab.o -c annoStreamTab.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoStreamLongTabix.o -c annoStreamLongTabix.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o annoStreamVcf.o -c annoStreamVcf.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o apacheLog.o -c apacheLog.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o asParse.o -c asParse.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o aveStats.o -c aveStats.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o axt.o -c axt.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o axtAffine.o -c axtAffine.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o bamFile.o -c bamFile.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o base64.o -c base64.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o basicBed.o -c basicBed.c basicBed.c: In function ‘bedParseRgb’: basicBed.c:1072:1: warning: ‘strncpy’ specified bound 64 equals destination size [-Wstringop-truncation] 1072 | strncpy(dupe, itemRgb, sizeof(dupe)); | ^ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o bbiAlias.o -c bbiAlias.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o bbiRead.o -c bbiRead.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o bbiWrite.o -c bbiWrite.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o bedTabix.o -c bedTabix.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o bigBed.o -c bigBed.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o bigBedCmdSupport.o -c bigBedCmdSupport.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o binRange.o -c binRange.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o bits.o -c bits.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o blastOut.o -c blastOut.c blastOut.c: In function ‘ncbiBlastOut’: blastOut.c:555:9: warning: variable ‘ii’ set but not used [-Wunused-but-set-variable=] 555 | int ii = 0; | ^~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o blastParse.o -c blastParse.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o boxClump.o -c boxClump.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o boxLump.o -c boxLump.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o bPlusTree.o -c bPlusTree.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cacheTwoBit.o -c cacheTwoBit.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o bwgCreate.o -c bwgCreate.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o bwgQuery.o -c bwgQuery.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o bwgValsOnChrom.o -c bwgValsOnChrom.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cda.o -c cda.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o chain.o -c chain.c chain.c: In function ‘chainReadUsedSwapLf’: chain.c:401:20: warning: variable ‘count’ set but not used [-Wunused-but-set-variable=] 401 | int usedCount = 0, count = 0; | ^~~~~ chain.c:401:5: warning: variable ‘usedCount’ set but not used [-Wunused-but-set-variable=] 401 | int usedCount = 0, count = 0; | ^~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o chainBlock.o -c chainBlock.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o chainConnect.o -c chainConnect.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o chainToAxt.o -c chainToAxt.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o chainToPsl.o -c chainToPsl.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cheapcgi.o -c cheapcgi.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cirTree.o -c cirTree.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o codebias.o -c codebias.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o colHash.o -c colHash.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o common.o -c common.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o correlate.o -c correlate.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o crTree.o -c crTree.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o csv.o -c csv.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o dgRange.o -c dgRange.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o diGraph.o -c diGraph.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o dlist.o -c dlist.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o dnaLoad.o -c dnaLoad.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o dnaMarkov.o -c dnaMarkov.c dnaMarkov.c: In function ‘dnaMarkTriple’: dnaMarkov.c:111:5: warning: variable ‘total’ set but not used [-Wunused-but-set-variable=] 111 | int total = 0; | ^~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o dnaMotif.o -c dnaMotif.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o dnaseq.o -c dnaseq.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o dnautil.o -c dnautil.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o dtdParse.o -c dtdParse.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o dyOut.o -c dyOut.c dyOut.c: In function ‘dyOutPointerFromToken’: dyOut.c:47:5: warning: variable ‘ix’ set but not used [-Wunused-but-set-variable=] 47 | int ix = 0; | ^~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o dystring.o -c dystring.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o elmTree.o -c elmTree.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o emblParse.o -c emblParse.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o errCatch.o -c errCatch.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o errAbort.o -c errAbort.c errAbort.c: In function ‘getThreadVars’: errAbort.c:382:5: warning: ignoring return value of ‘write’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 382 | write(STDERR_FILENO, errMsg, strlen(errMsg)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o fa.o -c fa.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o ffAli.o -c ffAli.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o ffScore.o -c ffScore.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o fieldedTable.o -c fieldedTable.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o filePath.o -c filePath.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o fixColor.o -c fixColor.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o flydna.o -c flydna.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o fof.o -c fof.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgCourier10.o -c font/mgCourier10.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgCourier12.o -c font/mgCourier12.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgCourier14.o -c font/mgCourier14.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgCourier18.o -c font/mgCourier18.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgCourier24.o -c font/mgCourier24.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgCourier34.o -c font/mgCourier34.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgCourier8.o -c font/mgCourier8.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelvetica10.o -c font/mgHelvetica10.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelvetica12.o -c font/mgHelvetica12.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelvetica14.o -c font/mgHelvetica14.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelvetica18.o -c font/mgHelvetica18.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelvetica24.o -c font/mgHelvetica24.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelvetica34.o -c font/mgHelvetica34.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelvetica8.o -c font/mgHelvetica8.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelveticaBold10.o -c font/mgHelveticaBold10.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelveticaBold12.o -c font/mgHelveticaBold12.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelveticaBold14.o -c font/mgHelveticaBold14.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelveticaBold18.o -c font/mgHelveticaBold18.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelveticaBold24.o -c font/mgHelveticaBold24.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelveticaBold34.o -c font/mgHelveticaBold34.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgHelveticaBold8.o -c font/mgHelveticaBold8.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgSixhi6.o -c font/mgSixhi6.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgSail8.o -c font/mgSail8.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgTimes10.o -c font/mgTimes10.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgTimes12.o -c font/mgTimes12.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgTimes14.o -c font/mgTimes14.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgTimes18.o -c font/mgTimes18.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgTimes24.o -c font/mgTimes24.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgTimes34.o -c font/mgTimes34.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgTimes8.o -c font/mgTimes8.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o font/mgMenlo12.o -c font/mgMenlo12.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o fq.o -c fq.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o freeType.o -c freeType.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o fuzzyShow.o -c fuzzyShow.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o gapCalc.o -c gapCalc.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o gdf.o -c gdf.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o gemfont.o -c gemfont.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o genomeRangeTree.o -c genomeRangeTree.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o gfNet.o -c gfNet.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o gff.o -c gff.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o gff3.o -c gff3.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o gfxPoly.o -c gfxPoly.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o gifLabel.o -c gifLabel.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o hacTree.o -c hacTree.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o hash.o -c hash.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o hex.o -c hex.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o histogram.o -c histogram.c histogram.c: In function ‘histoGram’: histogram.c:165:10: warning: variable ‘missed’ set but not used [-Wunused-but-set-variable=] 165 | unsigned missed = 0; | ^~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o hmmPfamParse.o -c hmmPfamParse.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o hmmstats.o -c hmmstats.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o htmlColor.o -c htmlColor.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o htmlPage.o -c htmlPage.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o htmshell.o -c htmshell.c htmshell.c: In function ‘htmlEncodeTextExtended’: htmshell.c:323:13: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 5 [-Wstringop-truncation] 323 | strncpy(out, newString, size); | ^ htmshell.c:323:13: warning: ‘strncpy’ output may be truncated copying between 4 and 6 bytes from a string of length 6 [-Wstringop-truncation] gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o hmac.o -c hmac.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o https.o -c https.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o intExp.o -c intExp.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o intValTree.o -c intValTree.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o internet.o -c internet.c internet.c: In function ‘internetParseOneSubnetCidr’: internet.c:508:5: warning: dangling pointer ‘ip_19’ to ‘expIp’ may be used [-Wdangling-pointer=] 508 | errAbort("internetIpStringToIp6 failed for %s", ip); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ internet.c:464:10: note: ‘expIp’ declared here 464 | char expIp[17]; | ^~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o itsa.o -c itsa.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o iupac.o -c iupac.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o jointalign.o -c jointalign.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o jpegSize.o -c jpegSize.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o jsonParse.o -c jsonParse.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o jsonQuery.o -c jsonQuery.c jsonQuery.c: In function ‘jsonPathPopHead’: jsonQuery.c:50:18: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 50 | char *pDot = strchr(pathIn, '.'); | ^~~~~~ jsonQuery.c:51:22: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 51 | char *pBracket = strchr(pathIn, '['); | ^~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o jsonWrite.o -c jsonWrite.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o keys.o -c keys.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o knetUdc.o -c knetUdc.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o kxTok.o -c kxTok.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o linefile.o -c linefile.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o lineFileOnBigBed.o -c lineFileOnBigBed.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o localmem.o -c localmem.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o log.o -c log.c log.c: In function ‘logDaemonize’: log.c:345:5: warning: ignoring return value of ‘dup’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 345 | dup(nullFd); // Stdout goes also to /dev/null | ^~~~~~~~~~~ log.c:346:5: warning: ignoring return value of ‘dup’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 346 | dup(nullFd); // Stderr goes also to /dev/null | ^~~~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o longTabix.o -c longTabix.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o longToList.o -c longToList.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o maf.o -c maf.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o mafFromAxt.o -c mafFromAxt.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o mafScore.o -c mafScore.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o mailViaPipe.o -c mailViaPipe.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o md5.o -c md5.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o matrixMarket.o -c matrixMarket.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o memalloc.o -c memalloc.c memalloc.c: In function ‘carefulAlloc’: memalloc.c:321:5: warning: ignoring return value of ‘write’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 321 | write(STDERR_FILENO, errMsg, strlen(errMsg)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o memgfx.o -c memgfx.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o meta.o -c meta.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o metaWig.o -c metaWig.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o mgCircle.o -c mgCircle.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o mgPolygon.o -c mgPolygon.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o mime.o -c mime.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o mmHash.o -c mmHash.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o net.o -c net.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o nib.o -c nib.c nib.c: In function ‘nibInput’: nib.c:225:22: warning: array subscript [-134217728, -1] is outside array bounds of ‘DNA[]’ [-Warray-bounds=] 225 | *d++ = valToNtTbl[(bVal>>4)]; | ~~~~~~~~~~^~~~~~~~~~~ In file included from nib.c:8: ../inc/dnautil.h:71:12: note: at offset [-134217728, -1] into object ‘valToNtMasked’ of size 256 71 | extern DNA valToNtMasked[256]; | ^~~~~~~~~~~~~ ../inc/dnautil.h:57:12: note: at offset [-134217728, -1] into object ‘valToNt’ of size [0, 9223372036854775807] 57 | extern DNA valToNt[]; | ^~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o nibTwo.o -c nibTwo.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o nt4.o -c nt4.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o numObscure.o -c numObscure.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o obscure.o -c obscure.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o oldGff.o -c oldGff.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o oligoTm.o -c oligoTm.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o options.o -c options.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o osunix.o -c osunix.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o pairHmm.o -c pairHmm.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o pairDistance.o -c pairDistance.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o paraFetch.o -c paraFetch.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o peakCluster.o -c peakCluster.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o phyloTree.o -c phyloTree.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o pipeline.o -c pipeline.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o portimpl.o -c portimpl.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o pngwrite.o -c pngwrite.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o psGfx.o -c psGfx.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o psPoly.o -c psPoly.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o pscmGfx.o -c pscmGfx.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o psl.o -c psl.c psl.c: In function ‘pslTrimToTargetRange’: psl.c:1423:9: warning: variable ‘qE’ set but not used [-Wunused-but-set-variable=] 1423 | int qE = qS + sz; | ^~ psl.c: In function ‘pslTrimToQueryRange’: psl.c:1509:9: warning: variable ‘tE’ set but not used [-Wunused-but-set-variable=] 1509 | int tE = tS + sz; | ^~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o pslGenoShow.o -c pslGenoShow.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o pslShow.o -c pslShow.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o pslTbl.o -c pslTbl.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o pslTransMap.o -c pslTransMap.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o pthreadDoList.o -c pthreadDoList.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o pthreadWrap.o -c pthreadWrap.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o qa.o -c qa.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o quickHeap.o -c quickHeap.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o quotedP.o -c quotedP.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o ra.o -c ra.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o rainbow.o -c rainbow.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o raToStruct.o -c raToStruct.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o rbTree.o -c rbTree.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o rangeTree.o -c rangeTree.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o regexHelper.o -c regexHelper.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o repMask.o -c repMask.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o rle.o -c rle.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o rnautil.o -c rnautil.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o rqlEval.o -c rqlEval.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o rqlParse.o -c rqlParse.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o rqlToSql.o -c rqlToSql.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o rudp.o -c rudp.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o scoreWindow.o -c scoreWindow.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o seg.o -c seg.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o seqOut.o -c seqOut.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o seqStats.o -c seqStats.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o servBrcMcw.o -c servBrcMcw.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o servCrunx.o -c servCrunx.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o servcis.o -c servcis.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o servcl.o -c servcl.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o servmsII.o -c servmsII.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o servpws.o -c servpws.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o shaRes.o -c shaRes.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o slog.o -c slog.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o snof.o -c snof.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o snofmake.o -c snofmake.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o snofsig.o -c snofsig.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o spaceSaver.o -c spaceSaver.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o spacedColumn.o -c spacedColumn.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o spacedSeed.o -c spacedSeed.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o sparseMatrix.o -c sparseMatrix.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o splatAli.o -c splatAli.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o sqlList.o -c sqlList.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o sqlNum.o -c sqlNum.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o sqlReserved.o -c sqlReserved.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o strex.o -c strex.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o subText.o -c subText.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o sufa.o -c sufa.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o sufx.o -c sufx.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o synQueue.o -c synQueue.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o tabRow.o -c tabRow.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o tagSchema.o -c tagSchema.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o tagStorm.o -c tagStorm.c tagStorm.c: In function ‘tagStormFromFile’: tagStorm.c:171:5: warning: variable ‘tagCount’ set but not used [-Wunused-but-set-variable=] 171 | int tagCount = 0; | ^~~~~~~~ tagStorm.c:170:5: warning: variable ‘stanzaCount’ set but not used [-Wunused-but-set-variable=] 170 | int stanzaCount = 0; | ^~~~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o tagToJson.o -c tagToJson.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o tagToSql.o -c tagToSql.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o textOut.o -c textOut.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o tokenizer.o -c tokenizer.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o trix.o -c trix.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o twoBit.o -c twoBit.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o udc.o -c udc.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o uuid.o -c uuid.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o vcf.o -c vcf.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o vcfBits.o -c vcfBits.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o vGfx.o -c vGfx.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o vPng.o -c vPng.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o verbose.o -c verbose.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o vMatrix.o -c vMatrix.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o wildcmp.o -c wildcmp.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o windowsToAscii.o -c windowsToAscii.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o wormdna.o -c wormdna.c wormdna.c: In function ‘wormInfoForGene’: wormdna.c:614:5: warning: variable ‘lineCount’ set but not used [-Wunused-but-set-variable=] 614 | int lineCount = 0; | ^~~~~~~~~ wormdna.c: In function ‘wormIsGeneName’: wormdna.c:513:1: warning: ‘strncpy’ specified bound 128 equals destination size [-Wstringop-truncation] 513 | strncpy(buf, name, sizeof(buf)); | ^ wormdna.c: In function ‘wormParseChromRange’: wormdna.c:870:1: warning: ‘strncpy’ specified bound 128 equals destination size [-Wstringop-truncation] 870 | strncpy(buf, in, sizeof(buf)); | ^ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o xAli.o -c xAli.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o xa.o -c xa.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o xap.o -c xap.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o xenshow.o -c xenshow.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o xmlEscape.o -c xmlEscape.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o xp.o -c xp.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o zlibFace.o -c zlibFace.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o curlWrap.o -c curlWrap.c mkdir -p aarch64 ar rcus aarch64/jkweb.a aliType.o annoAssembly.o annoFilter.o annoFormatter.o annoFormatTab.o annoGrator.o annoGrateWig.o annoGratorQuery.o annoOption.o annoRow.o annoStreamer.o annoStreamBigBed.o annoStreamBigWig.o annoStreamTab.o annoStreamLongTabix.o annoStreamVcf.o apacheLog.o asParse.o aveStats.o axt.o axtAffine.o bamFile.o base64.o basicBed.o bbiAlias.o bbiRead.o bbiWrite.o bedTabix.o bigBed.o bigBedCmdSupport.o binRange.o bits.o blastOut.o blastParse.o boxClump.o boxLump.o bPlusTree.o cacheTwoBit.o bwgCreate.o bwgQuery.o bwgValsOnChrom.o cacheTwoBit.o cda.o chain.o chainBlock.o chainConnect.o chainToAxt.o chainToPsl.o cheapcgi.o cirTree.o codebias.o colHash.o common.o correlate.o crTree.o csv.o dgRange.o diGraph.o dlist.o dnaLoad.o dnaMarkov.o dnaMotif.o dnaseq.o dnautil.o dtdParse.o dyOut.o dystring.o elmTree.o emblParse.o errCatch.o errAbort.o fa.o ffAli.o ffScore.o fieldedTable.o filePath.o fixColor.o flydna.o fof.o font/mgCourier10.o font/mgCourier12.o font/mgCourier14.o font/mgCourier18.o font/mgCourier24.o font/mgCourier34.o font/mgCourier8.o font/mgHelvetica10.o font/mgHelvetica12.o font/mgHelvetica14.o font/mgHelvetica18.o font/mgHelvetica24.o font/mgHelvetica34.o font/mgHelvetica8.o font/mgHelveticaBold10.o font/mgHelveticaBold12.o font/mgHelveticaBold14.o font/mgHelveticaBold18.o font/mgHelveticaBold24.o font/mgHelveticaBold34.o font/mgHelveticaBold8.o font/mgSixhi6.o font/mgSail8.o font/mgTimes10.o font/mgTimes12.o font/mgTimes14.o font/mgTimes18.o font/mgTimes24.o font/mgTimes34.o font/mgTimes8.o font/mgMenlo12.o fq.o freeType.o fuzzyShow.o gapCalc.o gdf.o gemfont.o genomeRangeTree.o gfNet.o gff.o gff3.o gfxPoly.o gifLabel.o hacTree.o hash.o hex.o histogram.o hmmPfamParse.o hmmstats.o htmlColor.o htmlPage.o htmshell.o hmac.o https.o intExp.o intValTree.o internet.o itsa.o iupac.o jointalign.o jpegSize.o jsonParse.o jsonQuery.o jsonWrite.o keys.o knetUdc.o kxTok.o linefile.o lineFileOnBigBed.o localmem.o log.o longTabix.o longToList.o maf.o mafFromAxt.o mafScore.o mailViaPipe.o md5.o matrixMarket.o memalloc.o memgfx.o meta.o metaWig.o mgCircle.o mgPolygon.o mime.o mmHash.o net.o nib.o nibTwo.o nt4.o numObscure.o obscure.o oldGff.o oligoTm.o options.o osunix.o pairHmm.o pairDistance.o paraFetch.o peakCluster.o phyloTree.o pipeline.o portimpl.o pngwrite.o psGfx.o psPoly.o pscmGfx.o psl.o pslGenoShow.o pslShow.o pslTbl.o pslTransMap.o pthreadDoList.o pthreadWrap.o qa.o quickHeap.o quotedP.o ra.o rainbow.o raToStruct.o rbTree.o rangeTree.o regexHelper.o repMask.o rle.o rnautil.o rqlEval.o rqlParse.o rqlToSql.o rudp.o scoreWindow.o seg.o seqOut.o seqStats.o servBrcMcw.o servCrunx.o servcis.o servcl.o servmsII.o servpws.o shaRes.o slog.o snof.o snofmake.o snofsig.o spaceSaver.o spacedColumn.o spacedSeed.o sparseMatrix.o splatAli.o sqlList.o sqlNum.o sqlReserved.o strex.o subText.o sufa.o sufx.o synQueue.o tabRow.o tagSchema.o tagStorm.o tagToJson.o tagToSql.o textOut.o tokenizer.o trix.o twoBit.o udc.o uuid.o vcf.o vcfBits.o vGfx.o vPng.o verbose.o vMatrix.o wildcmp.o windowsToAscii.o wormdna.o xAli.o xa.o xap.o xenshow.o xmlEscape.o xp.o zlibFace.o curlWrap.o make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/lib' make -C parasol/lib make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/lib' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o broadData.o -c broadData.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o paraLib.o -c paraLib.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o paraMessage.o -c paraMessage.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o machSpec.o -c machSpec.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o jobResult.o -c jobResult.c mkdir -p aarch64 ar rcu aarch64/paralib.a broadData.o paraLib.o paraMessage.o machSpec.o jobResult.o ranlib aarch64/paralib.a make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/lib' make -C htslib make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/htslib' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o kfunc.o -c kfunc.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o knetfile.o -c knetfile.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o kstring.o -c kstring.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o bgzf.o -c bgzf.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o faidx.o -c faidx.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o hfile.o -c hfile.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o hfile_net.o -c hfile_net.c echo '#define HTS_VERSION "1.3"' > version.h gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o hts.o -c hts.c hts.c: In function ‘hts_hopen’: hts.c:690:13: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 690 | if ((cp = strchr(mode, ','))) { | ^ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o md5.o -c md5.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o regidx.o -c regidx.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o sam.o -c sam.c sam.c: In function ‘sam_open_mode_opts’: sam.c:1366:15: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1366 | if ((opts = strchr(format, ','))) { | ^ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o synced_bcf_reader.o -c synced_bcf_reader.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o vcf_sweep.o -c vcf_sweep.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o tbx.o -c tbx.c tbx.c: In function ‘tbx_parse1’: tbx.c:75:27: warning: variable ‘ncols’ set but not used [-Wunused-but-set-variable=] 75 | int i, b = 0, id = 1, ncols = 0; | ^~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o vcf.o -c vcf.c vcf.c: In function ‘bcf_hdr_parse’: vcf.c:590:14: warning: variable ‘needs_sync’ set but not used [-Wunused-but-set-variable=] 590 | int len, needs_sync = 0; | ^~~~~~~~~~ vcf.c: In function ‘bcf_hdr_merge’: vcf.c:2352:50: warning: variable ‘ret’ set but not used [-Wunused-but-set-variable=] 2352 | int i, ndst_ori = dst->nhrec, need_sync = 0, ret = 0; | ^~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o vcfutils.o -c vcfutils.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/cram_codecs.o -c cram/cram_codecs.c cram/cram_codecs.c: In function ‘cram_huffman_encode_init’: cram/cram_codecs.c:1195:19: warning: variable ‘ntot’ set but not used [-Wunused-but-set-variable=] 1195 | int nvals, i, ntot = 0, max_val = 0, min_val = INT_MAX, k; | ^~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/cram_decode.o -c cram/cram_decode.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/cram_encode.o -c cram/cram_encode.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/cram_external.o -c cram/cram_external.c cram/cram_external.c: In function ‘cram_block_compression_hdr_set_DS’: cram/cram_external.c:128:16: warning: the comparison will always evaluate as ‘true’ for the address of ‘codecs’ will never be NULL [-Waddress] 128 | if (!ch || !ch->codecs || !ch->codecs[ds]) | ^ In file included from ../htslib/cram/cram.h:47, from cram/cram_external.c:44: ../htslib/cram/cram_structs.h:301:24: note: ‘codecs’ declared here 301 | struct cram_codec *codecs[DS_END]; | ^~~~~~ cram/cram_external.c: In function ‘cram_block_compression_hdr_decoder2encoder’: cram/cram_external.c:167:16: warning: the comparison will always evaluate as ‘true’ for the address of ‘codecs’ will never be NULL [-Waddress] 167 | if (!ch || !ch->codecs) | ^ ../htslib/cram/cram_structs.h:301:24: note: ‘codecs’ declared here 301 | struct cram_codec *codecs[DS_END]; | ^~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/cram_index.o -c cram/cram_index.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/cram_io.o -c cram/cram_io.c cram/cram_io.c: In function ‘cram_dopen’: cram/cram_io.c:4209:29: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 4209 | fd->prefix = strdup((cp = strrchr(filename, '/')) ? cp+1 : filename); | ^ cram/cram_io.c: In function ‘cram_set_cache_url’: cram/cram_io.c:2185:9: warning: ‘strncpy’ specified bound 1024 equals destination size [-Wstringop-truncation] 2185 | strncpy(fd->cacheDir, cacheDir, sizeof(fd->cacheDir)); | ^ cram/cram_io.c: In function ‘cram_write_SAM_hdr’: cram/cram_io.c:3825:13: warning: ‘strncpy’ specified bound 4096 equals destination size [-Wstringop-truncation] 3825 | strncpy(out, in, PATH_MAX); | ^ cram/cram_io.c:3817:9: warning: ‘strncpy’ specified bound 4096 equals destination size [-Wstringop-truncation] 3817 | strncpy(out, in, PATH_MAX); | ^ cram/cram_io.c: In function ‘cram_dopen’: cram/cram_io.c:4200:9: warning: ‘strncpy’ specified bound 20 equals destination size [-Wstringop-truncation] 4200 | strncpy(def->file_id, filename, 20); | ^ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/cram_samtools.o -c cram/cram_samtools.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/cram_stats.o -c cram/cram_stats.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/files.o -c cram/files.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/mFILE.o -c cram/mFILE.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/open_trace_file.o -c cram/open_trace_file.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/pooled_alloc.o -c cram/pooled_alloc.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/rANS_static.o -c cram/rANS_static.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/sam_header.o -c cram/sam_header.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/string_alloc.o -c cram/string_alloc.c cram/string_alloc.c: In function ‘string_dup’: cram/string_alloc.c:151:5: warning: ‘strncpy’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 151 | strncpy(str, instr, len); | ^ cram/string_alloc.c:143:12: note: length computed here 143 | return string_ndup(a_str, instr, strlen(instr)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/thread_pool.o -c cram/thread_pool.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/vlen.o -c cram/vlen.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -DKNETFILE_HOOKS -DUCSC_CRAM -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o cram/zfio.o -c cram/zfio.c ar -rc libhts.a kfunc.o knetfile.o kstring.o bgzf.o faidx.o hfile.o hfile_net.o hts.o md5.o regidx.o sam.o synced_bcf_reader.o vcf_sweep.o tbx.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_samtools.o cram/cram_stats.o cram/files.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/rANS_static.o cram/sam_header.o cram/string_alloc.o cram/thread_pool.o cram/vlen.o cram/zfio.o ranlib libhts.a make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/htslib' make -C hg/lib make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/lib' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o adjacency.o -c adjacency.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o affyPairs.o -c affyPairs.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o agpFrag.o -c agpFrag.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o agpGap.o -c agpGap.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o alignSeqSizes.o -c alignSeqSizes.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o altGraphX.o -c altGraphX.c altGraphX.c: In function ‘altGraphXDrawPack’: altGraphX.c:1649:5: warning: variable ‘count’ set but not used [-Wunused-but-set-variable=] 1649 | int count =0; | ^~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o asmAlias.o -c asmAlias.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o asmEquivalent.o -c asmEquivalent.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o asmSummary.o -c asmSummary.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o assemblyList.o -c assemblyList.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o autoUpgrade.o -c autoUpgrade.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o axtInfo.o -c axtInfo.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o barChartBed.o -c barChartBed.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o barChartCategory.o -c barChartCategory.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o barChartUi.o -c barChartUi.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o bed.o -c bed.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o bed12Source.o -c bed12Source.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o bedDetail.o -c bedDetail.c bedDetail.c: In function ‘bedDetailLineFileLoad’: bedDetail.c:340:6: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation] 340 | strncpy(item->strand, row[5], sizeof(item->strand)); | ^ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o bedMethyl.o -c bedMethyl.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o bigBedFind.o -c bigBedFind.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o bigBedLabel.o -c bigBedLabel.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o bigChain.o -c bigChain.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o bigDbSnp.o -c bigDbSnp.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o bigGenePred.o -c bigGenePred.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o bigLink.o -c bigLink.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o bigPsl.o -c bigPsl.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o blastTab.o -c blastTab.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o borf.o -c borf.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o botDelay.o -c botDelay.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o cart.o -c cart.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o cartDb.o -c cartDb.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o cartTrackDb.o -c cartTrackDb.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o cdsEvidence.o -c cdsEvidence.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o cdsOrtho.o -c cdsOrtho.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o cdsPick.o -c cdsPick.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o cgapSage/cgapSage.o -c cgapSage/cgapSage.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o cgapSage/cgapSageLib.o -c cgapSage/cgapSageLib.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o cgiApoptosis.o -c cgiApoptosis.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o chainCart.o -c chainCart.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o chainDb.o -c chainDb.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o chainLink.o -c chainLink.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o chainNet.o -c chainNet.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o chainNetDbLoad.o -c chainNetDbLoad.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o chromAlias.o -c chromAlias.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o chromBins.o -c chromBins.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o chromGraph.o -c chromGraph.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o chromGraphFactory.o -c chromGraphFactory.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o chromInfo.o -c chromInfo.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o chromInserts.o -c chromInserts.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o chromKeeper.o -c chromKeeper.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o clonePos.o -c clonePos.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o cpgIsland.o -c cpgIsland.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o ctgPos.o -c ctgPos.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o customAdjacency.o -c customAdjacency.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o customComposite.o -c customComposite.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o customFactory.o -c customFactory.c customFactory.c: In function ‘niceGeneName’: customFactory.c:1977:1: warning: ‘strncpy’ specified bound 128 equals destination size [-Wstringop-truncation] 1977 | strncpy(buf, name, sizeof(buf)); | ^ customFactory.c: In function ‘bedLoader’: customFactory.c:652:6: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation] 652 | strncpy(bed->strand, row[5], sizeof(bed->strand)); | ^ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o customPp.o -c customPp.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o customTrack.o -c customTrack.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o cv.o -c cv.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o cytoBand.o -c cytoBand.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o dbDb.o -c dbDb.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o decoration.o -c decoration.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o decoratorUi.o -c decoratorUi.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o defaultDb.o -c defaultDb.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o dnaMotifSql.o -c dnaMotifSql.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o dupTrack.o -c dupTrack.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/encodeErge.o -c encode/encodeErge.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/encodeErgeHssCellLines.o -c encode/encodeErgeHssCellLines.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/encodeExp.o -c encode/encodeExp.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/encodeHapMapAlleleFreq.o -c encode/encodeHapMapAlleleFreq.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/encodeIndels.o -c encode/encodeIndels.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/encodePeak.o -c encode/encodePeak.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/encodeRegionInfoCustom.o -c encode/encodeRegionInfoCustom.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/encodeRna.o -c encode/encodeRna.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/encodeStanfordPromoters.o -c encode/encodeStanfordPromoters.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/encodeStanfordPromotersAverage.o -c encode/encodeStanfordPromotersAverage.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/peptideMapping.o -c encode/peptideMapping.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodeAnnotationRemark.o -c encode/wgEncodeGencodeAnnotationRemark.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodeAttrs.o -c encode/wgEncodeGencodeAttrs.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodeEntrezGene.o -c encode/wgEncodeGencodeEntrezGene.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodeExonSupport.o -c encode/wgEncodeGencodeExonSupport.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodeGeneSource.o -c encode/wgEncodeGencodeGeneSource.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodeGeneSymbol.o -c encode/wgEncodeGencodeGeneSymbol.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodePdb.o -c encode/wgEncodeGencodePdb.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodePubMed.o -c encode/wgEncodeGencodePubMed.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodeRefSeq.o -c encode/wgEncodeGencodeRefSeq.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodeTag.o -c encode/wgEncodeGencodeTag.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodeTranscriptSource.o -c encode/wgEncodeGencodeTranscriptSource.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodeTranscriptSupport.o -c encode/wgEncodeGencodeTranscriptSupport.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodeTranscriptionSupportLevel.o -c encode/wgEncodeGencodeTranscriptionSupportLevel.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode/wgEncodeGencodeUniProt.o -c encode/wgEncodeGencodeUniProt.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o encode3/encode3Valid.o -c encode3/encode3Valid.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o estOrientInfo.o -c estOrientInfo.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o expData.o -c expData.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o exportedDataHubs.o -c exportedDataHubs.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o expRecord.o -c expRecord.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o facetField.o -c facetField.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o facetedTable.o -c facetedTable.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o featureBits.o -c featureBits.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o findKGAlias.o -c findKGAlias.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o fakeCurl.o -c fakeCurl.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o findKGProtAlias.o -c findKGProtAlias.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gbSeq.o -c gbSeq.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gbExtFile.o -c gbExtFile.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gcPercent.o -c gcPercent.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o genark.o -c genark.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o genbank.o -c genbank.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o genbankBlackList.o -c genbankBlackList.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gencodeTracksCommon.o -c gencodeTracksCommon.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gencodeAttrs.o -c gencodeAttrs.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gencodeToRefSeq.o -c gencodeToRefSeq.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o geneGraph.o -c geneGraph.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o genePred.o -c genePred.c genePred.c: In function ‘assignFrame’: genePred.c:677:5: warning: variable ‘numFrameExons’ set but not used [-Wunused-but-set-variable=] 677 | int numFrameExons = 0; | ^~~~~~~~~~~~~ genePred.c:676:5: warning: variable ‘numCdsExons’ set but not used [-Wunused-but-set-variable=] 676 | int numCdsExons = 0; | ^~~~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o genePredReader.o -c genePredReader.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o geoMirror.o -c geoMirror.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o ggCluster.o -c ggCluster.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o ggDump.o -c ggDump.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o ggGraph.o -c ggGraph.c ggGraph.c: In function ‘makeInitialGraph’: ggGraph.c:132:5: warning: variable ‘totalWithDupes’ set but not used [-Wunused-but-set-variable=] 132 | int totalWithDupes = 0; | ^~~~~~~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o ggMrnaAli.o -c ggMrnaAli.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o ggTypes.o -c ggTypes.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o glDbRep.o -c glDbRep.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o googleAnalytics.o -c googleAnalytics.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gpFx.o -c gpFx.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o grp.o -c grp.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gtexAse.o -c gtexAse.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gtexDonor.o -c gtexDonor.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gtexGeneBed.o -c gtexGeneBed.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gtexInfo.o -c gtexInfo.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gtexSample.o -c gtexSample.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gtexSampleData.o -c gtexSampleData.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gtexTissue.o -c gtexTissue.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gtexTissueMedian.o -c gtexTissueMedian.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o gtexUi.o -c gtexUi.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hCommon.o -c hCommon.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hPrint.o -c hPrint.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hVarSubst.o -c hVarSubst.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hapmapAllelesOrtho.o -c hapmapAllelesOrtho.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hapmapPhaseIIISummary.o -c hapmapPhaseIIISummary.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hapmapSnps.o -c hapmapSnps.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hdb.o -c hdb.c hdb.c: In function ‘getGencodeVersion’: hdb.c:5921:11: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 5921 | char *p = strrchr(name, 'V'); | ^~~~~~~ hdb.c: In function ‘hGetCtBedRange’: hdb.c:2300:13: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation] 2300 | strncpy(bedItem->strand, row[4], 2); | ^ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hgColors.o -c hgColors.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hgConfig.o -c hgConfig.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hgFind.o -c hgFind.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hgFindSpec.o -c hgFindSpec.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hgFindSpecCustom.o -c hgFindSpecCustom.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hgHgvs.o -c hgHgvs.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hgHgvsParse.o -c hgHgvsParse.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hgMaf.o -c hgMaf.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hgRelate.o -c hgRelate.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hic.o -c hic.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hicUi.o -c hicUi.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hubConnect.o -c hubConnect.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hubPublic.o -c hubPublic.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hubSearchText.o -c hubSearchText.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hubSpace.o -c hubSpace.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hubSpaceKeys.o -c hubSpaceKeys.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hubSpaceQuotas.o -c hubSpaceQuotas.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o hui.o -c hui.c hui.c: In function ‘wigMafSpeciesTable’: hui.c:7970:5: warning: variable ‘i’ set but not used [-Wunused-but-set-variable=] 7970 | int i,j; | ^ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o imageClone.o -c imageClone.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o indelShift.o -c indelShift.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o interact.o -c interact.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o interactUi.o -c interactUi.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o itemAttr.o -c itemAttr.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o jksql.o -c jksql.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o joiner.o -c joiner.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o jsHelper.o -c jsHelper.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o kgAlias.o -c kgAlias.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o kgProtAlias.o -c kgProtAlias.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o kgXref.o -c kgXref.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o knownInfo.o -c knownInfo.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o knownMore.o -c knownMore.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o lav.o -c lav.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o lfs.o -c lfs.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o liftOver.o -c liftOver.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o liftOverChain.o -c liftOverChain.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o liftUp.o -c liftUp.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o longRange.o -c longRange.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o lrg.o -c lrg.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o lsSnpPdb.o -c lsSnpPdb.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o mafFrames.o -c mafFrames.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o mafGene.o -c mafGene.c mafGene.c: In function ‘copyMafs’: mafGene.c:745:9: warning: variable ‘thisSize’ set but not used [-Wunused-but-set-variable=] 745 | int thisSize = 0; | ^~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o mafSummary.o -c mafSummary.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o makeItemsItem.o -c makeItemsItem.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o mdb.o -c mdb.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o microarray.o -c microarray.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o minChromSize.o -c minChromSize.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o namedSessionDb.o -c namedSessionDb.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o netAlign.o -c netAlign.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o netCart.o -c netCart.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o pepPred.o -c pepPred.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o pgPhenoAssoc.o -c pgPhenoAssoc.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o pgSnp.o -c pgSnp.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o pslReader.o -c pslReader.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o qaSeq.o -c qaSeq.c qaSeq.c: In function ‘qaFastReadNext’: qaSeq.c:195:1: warning: ‘strncpy’ specified bound 256 equals destination size [-Wstringop-truncation] 195 | strncpy(name, s, sizeof(name)); | ^ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o quickLift.o -c quickLift.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o quickLiftChain.o -c quickLiftChain.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o rankProp.o -c rankProp.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o refLink.o -c refLink.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o refSeqStatus.o -c refSeqStatus.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o rikenCluster.o -c rikenCluster.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o rmskAlign.o -c rmskAlign.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o rmskJoined.o -c rmskJoined.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o rmskOut.o -c rmskOut.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o rmskOut2.o -c rmskOut2.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o rnaGene.o -c rnaGene.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o sage.o -c sage.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o sageCounts.o -c sageCounts.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o samAlignment.o -c samAlignment.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o sample.o -c sample.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o sanger22extra.o -c sanger22extra.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o scoredRef.o -c scoredRef.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o sessionData.o -c sessionData.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o seqWindow.o -c seqWindow.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o snakeUi.o -c snakeUi.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o snp.o -c snp.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o snpExceptions.o -c snpExceptions.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o soTerm.o -c soTerm.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o spDb.o -c spDb.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o sqlProg.o -c sqlProg.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o sqlSanity.o -c sqlSanity.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o stanMad.o -c stanMad.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o stsAlias.o -c stsAlias.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o stsInfo2.o -c stsInfo2.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o stsMap.o -c stsMap.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o stsMarker.o -c stsMarker.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o tableStatus.o -c tableStatus.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o tablesTables.o -c tablesTables.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o tagRepo.o -c tagRepo.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o tfbsCons.o -c tfbsCons.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o tigrCmrGene.o -c tigrCmrGene.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o traceInfo.o -c traceInfo.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o trackDb.o -c trackDb.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o trackDbCache.o -c trackDbCache.c trackDbCache.c: In function ‘cloneTdbListToSharedMem’: trackDbCache.c:350:1: warning: ignoring return value of ‘ftruncate’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 350 | ftruncate(fd, 0); | ^~~~~~~~~~~~~~~~ trackDbCache.c:351:1: warning: ignoring return value of ‘ftruncate’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 351 | ftruncate(fd, size); | ^~~~~~~~~~~~~~~~~~~ trackDbCache.c:391:1: warning: ignoring return value of ‘ftruncate’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 391 | ftruncate(fd, memUsed); | ^~~~~~~~~~~~~~~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o trackDbCustom.o -c trackDbCustom.c trackDbCustom.c: In function ‘trackDbPrioritizeContainerItems’: trackDbCustom.c:1069:5: warning: variable ‘countOfSortedContainers’ set but not used [-Wunused-but-set-variable=] 1069 | int countOfSortedContainers = 0; | ^~~~~~~~~~~~~~~~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o trackHub.o -c trackHub.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o trackVersion.o -c trackVersion.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o trashDir.o -c trashDir.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o txAliDiff.o -c txAliDiff.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o txCluster.o -c txCluster.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o txCommon.o -c txCommon.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o txEdgeBed.o -c txEdgeBed.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o txGraph.o -c txGraph.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o txInfo.o -c txInfo.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o txRnaAccs.o -c txRnaAccs.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o userdata.o -c userdata.c userdata.c: In function ‘prefixUserFile’: userdata.c:225:5: warning: ignoring return value of ‘realpath’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 225 | realpath(path, canonicalPath); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ userdata.c: In function ‘removeFileForUser’: userdata.c:470:1: warning: ignoring return value of ‘realpath’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 470 | realpath(fname, canonicalPath); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o variantProjector.o -c variantProjector.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o vcfUi.o -c vcfUi.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o vegaInfo.o -c vegaInfo.c sed -e 's/\\/\\\\/g; s/"/\\"/g; s/^/"/; s/$/\\n"/;' jWestHeader.html > jWestHeader.h sed -e 's/\\/\\\\/g; s/"/\\"/g; s/^/"/; s/$/\\n"/;' jWestBanner.html > jWestBanner.h gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o web.o -c web.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o wigAsciiToBinary.o -c wigAsciiToBinary.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o wigDataStream.o -c wigDataStream.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o wiggle.o -c wiggle.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o wiggleCart.o -c wiggleCart.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o wiggleUtils.o -c wiggleUtils.c wiggleUtils.c: In function ‘minSpan’: wiggleUtils.c:167:5: warning: variable ‘spanCount’ set but not used [-Wunused-but-set-variable=] 167 | int spanCount = 0; | ^~~~~~~~~ wiggleUtils.c: In function ‘spanInUse’: wiggleUtils.c:264:5: warning: variable ‘spanCount’ set but not used [-Wunused-but-set-variable=] 264 | int spanCount = 0; | ^~~~~~~~~ wiggleUtils.c: In function ‘wigReadDataRow’: wiggleUtils.c:457:5: warning: variable ‘noData’ set but not used [-Wunused-but-set-variable=] 457 | int noData = 0; | ^~~~~~ wiggleUtils.c: In function ‘wigFetchData’: wiggleUtils.c:786:5: warning: variable ‘spanCount’ set but not used [-Wunused-but-set-variable=] 786 | int spanCount = 0; | ^~~~~~~~~ wiggleUtils.c:777:5: warning: variable ‘rowCount’ set but not used [-Wunused-but-set-variable=] 777 | int rowCount = 0; | ^~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o wikiLink.o -c wikiLink.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o wikiTrack.o -c wikiTrack.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o bigRmskAlignBed.o -c bigRmskAlignBed.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -I/usr/include/mysql -o bigRmskBed.o -c bigRmskBed.c mkdir -p ../../lib/aarch64 ar rcus ../../lib/aarch64/jkhgap.a adjacency.o affyPairs.o agpFrag.o agpGap.o alignSeqSizes.o altGraphX.o asmAlias.o asmEquivalent.o asmSummary.o assemblyList.o autoUpgrade.o axtInfo.o barChartBed.o barChartCategory.o barChartUi.o bed.o bed12Source.o bedDetail.o bedMethyl.o bigBedFind.o bigBedLabel.o bigChain.o bigDbSnp.o bigGenePred.o bigLink.o bigPsl.o blastTab.o borf.o botDelay.o cart.o cartDb.o cartTrackDb.o cdsEvidence.o cdsOrtho.o cdsPick.o cgapSage/cgapSage.o cgapSage/cgapSageLib.o cgiApoptosis.o chainCart.o chainDb.o chainLink.o chainNet.o chainNetDbLoad.o chromAlias.o chromBins.o chromGraph.o chromGraphFactory.o chromInfo.o chromInserts.o chromKeeper.o clonePos.o cpgIsland.o ctgPos.o customAdjacency.o customComposite.o customFactory.o customPp.o customTrack.o cv.o cytoBand.o dbDb.o decoration.o decoratorUi.o defaultDb.o dnaMotifSql.o dupTrack.o encode/encodeErge.o encode/encodeErgeHssCellLines.o encode/encodeExp.o encode/encodeHapMapAlleleFreq.o encode/encodeIndels.o encode/encodePeak.o encode/encodeRegionInfoCustom.o encode/encodeRna.o encode/encodeStanfordPromoters.o encode/encodeStanfordPromotersAverage.o encode/peptideMapping.o encode/wgEncodeGencodeAnnotationRemark.o encode/wgEncodeGencodeAttrs.o encode/wgEncodeGencodeEntrezGene.o encode/wgEncodeGencodeExonSupport.o encode/wgEncodeGencodeGeneSource.o encode/wgEncodeGencodeGeneSymbol.o encode/wgEncodeGencodePdb.o encode/wgEncodeGencodePubMed.o encode/wgEncodeGencodeRefSeq.o encode/wgEncodeGencodeTag.o encode/wgEncodeGencodeTranscriptSource.o encode/wgEncodeGencodeTranscriptSupport.o encode/wgEncodeGencodeTranscriptionSupportLevel.o encode/wgEncodeGencodeUniProt.o encode3/encode3Valid.o estOrientInfo.o expData.o exportedDataHubs.o expRecord.o facetField.o facetedTable.o featureBits.o findKGAlias.o fakeCurl.o findKGProtAlias.o gbSeq.o gbExtFile.o gcPercent.o genark.o genbank.o genbankBlackList.o gencodeTracksCommon.o gencodeAttrs.o gencodeToRefSeq.o geneGraph.o genePred.o genePredReader.o geoMirror.o ggCluster.o ggDump.o ggGraph.o ggMrnaAli.o ggTypes.o glDbRep.o googleAnalytics.o gpFx.o grp.o gtexAse.o gtexDonor.o gtexGeneBed.o gtexInfo.o gtexSample.o gtexSampleData.o gtexTissue.o gtexTissueMedian.o gtexUi.o hCommon.o hPrint.o hVarSubst.o hapmapAllelesOrtho.o hapmapPhaseIIISummary.o hapmapSnps.o hdb.o hgColors.o hgConfig.o hgFind.o hgFindSpec.o hgFindSpecCustom.o hgHgvs.o hgHgvsParse.o hgMaf.o hgRelate.o hic.o hicUi.o hubConnect.o hubPublic.o hubSearchText.o hubSpace.o hubSpaceKeys.o hubSpaceQuotas.o hui.o imageClone.o indelShift.o interact.o interactUi.o itemAttr.o jksql.o joiner.o jsHelper.o kgAlias.o kgProtAlias.o kgXref.o knownInfo.o knownMore.o lav.o lfs.o liftOver.o liftOverChain.o liftUp.o longRange.o lrg.o lsSnpPdb.o mafFrames.o mafGene.o mafSummary.o makeItemsItem.o mdb.o microarray.o minChromSize.o namedSessionDb.o netAlign.o netCart.o pepPred.o pgPhenoAssoc.o pgSnp.o pslReader.o qaSeq.o quickLift.o quickLiftChain.o rankProp.o refLink.o refSeqStatus.o rikenCluster.o rmskAlign.o rmskJoined.o rmskOut.o rmskOut2.o rnaGene.o sage.o sageCounts.o samAlignment.o sample.o sanger22extra.o scoredRef.o sessionData.o seqWindow.o snakeUi.o snp.o snpExceptions.o soTerm.o spDb.o sqlProg.o sqlSanity.o stanMad.o stsAlias.o stsInfo2.o stsMap.o stsMarker.o tableStatus.o tablesTables.o tagRepo.o tfbsCons.o tigrCmrGene.o traceInfo.o trackDb.o trackDbCache.o trackDbCustom.o trackHub.o trackVersion.o trashDir.o txAliDiff.o txCluster.o txCommon.o txEdgeBed.o txGraph.o txInfo.o txRnaAccs.o userdata.o variantProjector.o vcfUi.o vegaInfo.o web.o wigAsciiToBinary.o wigDataStream.o wiggle.o wiggleCart.o wiggleUtils.o wikiLink.o wikiTrack.o bigRmskAlignBed.o bigRmskBed.o make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/lib' cd optimalLeaf && make make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/optimalLeaf' g++ -c -g Tree.cc g++ -c -g Leaf.cc g++ -c -g readFile.cc g++ -c -g SimMat.cc g++ -c -g bestArr.cc mkdir aarch64 ar rcus ../lib/aarch64/optimalLeaf.a Tree.o Leaf.o readFile.o SimMat.o bestArr.o make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/optimalLeaf' mkdir -p /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin cd hg && make utils make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg' make[2]: hostname: No such file or directory cd lib && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/lib' mkdir -p ../../lib/aarch64 ar rcus ../../lib/aarch64/jkhgap.a adjacency.o affyPairs.o agpFrag.o agpGap.o alignSeqSizes.o altGraphX.o asmAlias.o asmEquivalent.o asmSummary.o assemblyList.o autoUpgrade.o axtInfo.o barChartBed.o barChartCategory.o barChartUi.o bed.o bed12Source.o bedDetail.o bedMethyl.o bigBedFind.o bigBedLabel.o bigChain.o bigDbSnp.o bigGenePred.o bigLink.o bigPsl.o blastTab.o borf.o botDelay.o cart.o cartDb.o cartTrackDb.o cdsEvidence.o cdsOrtho.o cdsPick.o cgapSage/cgapSage.o cgapSage/cgapSageLib.o cgiApoptosis.o chainCart.o chainDb.o chainLink.o chainNet.o chainNetDbLoad.o chromAlias.o chromBins.o chromGraph.o chromGraphFactory.o chromInfo.o chromInserts.o chromKeeper.o clonePos.o cpgIsland.o ctgPos.o customAdjacency.o customComposite.o customFactory.o customPp.o customTrack.o cv.o cytoBand.o dbDb.o decoration.o decoratorUi.o defaultDb.o dnaMotifSql.o dupTrack.o encode/encodeErge.o encode/encodeErgeHssCellLines.o encode/encodeExp.o encode/encodeHapMapAlleleFreq.o encode/encodeIndels.o encode/encodePeak.o encode/encodeRegionInfoCustom.o encode/encodeRna.o encode/encodeStanfordPromoters.o encode/encodeStanfordPromotersAverage.o encode/peptideMapping.o encode/wgEncodeGencodeAnnotationRemark.o encode/wgEncodeGencodeAttrs.o encode/wgEncodeGencodeEntrezGene.o encode/wgEncodeGencodeExonSupport.o encode/wgEncodeGencodeGeneSource.o encode/wgEncodeGencodeGeneSymbol.o encode/wgEncodeGencodePdb.o encode/wgEncodeGencodePubMed.o encode/wgEncodeGencodeRefSeq.o encode/wgEncodeGencodeTag.o encode/wgEncodeGencodeTranscriptSource.o encode/wgEncodeGencodeTranscriptSupport.o encode/wgEncodeGencodeTranscriptionSupportLevel.o encode/wgEncodeGencodeUniProt.o encode3/encode3Valid.o estOrientInfo.o expData.o exportedDataHubs.o expRecord.o facetField.o facetedTable.o featureBits.o findKGAlias.o fakeCurl.o findKGProtAlias.o gbSeq.o gbExtFile.o gcPercent.o genark.o genbank.o genbankBlackList.o gencodeTracksCommon.o gencodeAttrs.o gencodeToRefSeq.o geneGraph.o genePred.o genePredReader.o geoMirror.o ggCluster.o ggDump.o ggGraph.o ggMrnaAli.o ggTypes.o glDbRep.o googleAnalytics.o gpFx.o grp.o gtexAse.o gtexDonor.o gtexGeneBed.o gtexInfo.o gtexSample.o gtexSampleData.o gtexTissue.o gtexTissueMedian.o gtexUi.o hCommon.o hPrint.o hVarSubst.o hapmapAllelesOrtho.o hapmapPhaseIIISummary.o hapmapSnps.o hdb.o hgColors.o hgConfig.o hgFind.o hgFindSpec.o hgFindSpecCustom.o hgHgvs.o hgHgvsParse.o hgMaf.o hgRelate.o hic.o hicUi.o hubConnect.o hubPublic.o hubSearchText.o hubSpace.o hubSpaceKeys.o hubSpaceQuotas.o hui.o imageClone.o indelShift.o interact.o interactUi.o itemAttr.o jksql.o joiner.o jsHelper.o kgAlias.o kgProtAlias.o kgXref.o knownInfo.o knownMore.o lav.o lfs.o liftOver.o liftOverChain.o liftUp.o longRange.o lrg.o lsSnpPdb.o mafFrames.o mafGene.o mafSummary.o makeItemsItem.o mdb.o microarray.o minChromSize.o namedSessionDb.o netAlign.o netCart.o pepPred.o pgPhenoAssoc.o pgSnp.o pslReader.o qaSeq.o quickLift.o quickLiftChain.o rankProp.o refLink.o refSeqStatus.o rikenCluster.o rmskAlign.o rmskJoined.o rmskOut.o rmskOut2.o rnaGene.o sage.o sageCounts.o samAlignment.o sample.o sanger22extra.o scoredRef.o sessionData.o seqWindow.o snakeUi.o snp.o snpExceptions.o soTerm.o spDb.o sqlProg.o sqlSanity.o stanMad.o stsAlias.o stsInfo2.o stsMap.o stsMarker.o tableStatus.o tablesTables.o tagRepo.o tfbsCons.o tigrCmrGene.o traceInfo.o trackDb.o trackDbCache.o trackDbCustom.o trackHub.o trackVersion.o trashDir.o txAliDiff.o txCluster.o txCommon.o txEdgeBed.o txGraph.o txInfo.o txRnaAccs.o userdata.o variantProjector.o vcfUi.o vegaInfo.o web.o wigAsciiToBinary.o wigDataStream.o wiggle.o wiggleCart.o wiggleUtils.o wikiLink.o wikiTrack.o bigRmskAlignBed.o bigRmskBed.o make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/lib' if test -d affyTransciptome ; then cd affyTransciptome && echo affyTransciptome && make ; fi affyTransciptome make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/affyTransciptome' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -Wimplicit -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/affyPairsToSample affyPairsToSample.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -Wimplicit -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/normalizeSampleFile normalizeSampleFile.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -Wimplicit -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/avgTranscriptomeExps avgTranscriptomeExps.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -Wimplicit -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/maxTranscriptomeExps maxTranscriptomeExps.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -Wimplicit -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/scaleSampleFiles scaleSampleFiles.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -Wimplicit -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/averageZoomLevels averageZoomLevels.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -Wimplicit -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/groupSamples groupSamples.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/affyTransciptome' if test -d agpCloneCheck ; then cd agpCloneCheck && echo agpCloneCheck && make ; fi agpCloneCheck make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/agpCloneCheck' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o agpCloneCheck.o -c agpCloneCheck.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agpCloneCheck agpCloneCheck.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agpCloneCheck make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/agpCloneCheck' if test -d agpCloneList ; then cd agpCloneList && echo agpCloneList && make ; fi agpCloneList make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/agpCloneList' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o agpCloneList.o -c agpCloneList.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agpCloneList agpCloneList.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agpCloneList make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/agpCloneList' if test -d agpAllToFaFile ; then cd agpAllToFaFile && echo agpAllToFaFile && make ; fi agpAllToFaFile make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/agpAllToFaFile' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o agpAllToFaFile.o -c agpAllToFaFile.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agpAllToFaFile agpAllToFaFile.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agpAllToFaFile make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/agpAllToFaFile' if test -d agpMergeChromScaf ; then cd agpMergeChromScaf && echo agpMergeChromScaf && make ; fi agpMergeChromScaf make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/agpMergeChromScaf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o agpMergeChromScaf.o -c agpMergeChromScaf.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agpMergeChromScaf \ agpMergeChromScaf.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm agpMergeChromScaf.c: In function ‘agpMergeChromScaf’: agpMergeChromScaf.c:149:12: warning: ‘gap’ may be used uninitialized [-Wmaybe-uninitialized] 149 | gap->chromStart += 1; | ^ agpMergeChromScaf.c:59:16: note: ‘gap’ was declared here 59 | struct agpGap *gap; | ^ true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agpMergeChromScaf make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/agpMergeChromScaf' if test -d agpToFa ; then cd agpToFa && echo agpToFa && make ; fi agpToFa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/agpToFa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o agpToFa.o -c agpToFa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agpToFa agpToFa.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agpToFa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/agpToFa' if test -d agpToGl ; then cd agpToGl && echo agpToGl && make ; fi agpToGl make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/agpToGl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o agpToGl.o -c agpToGl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agpToGl agpToGl.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agpToGl make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/agpToGl' if test -d altSplice ; then cd altSplice && echo altSplice && make ; fi altSplice make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/altSplice' cd lib && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/altSplice/lib' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o spliceGraph.o -c spliceGraph.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o exonGraph.o -c exonGraph.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o heap.o -c heap.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o altSpliceSite.o -c altSpliceSite.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o pfamDat.o -c pfamDat.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o affyProbe.o -c affyProbe.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o altProbe.o -c altProbe.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o dMatrix.o -c dMatrix.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o splice.o -c splice.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mouseAPSetEventMap.o -c mouseAPSetEventMap.c ar rcu ./aarch64/libSpliceGraph.a spliceGraph.o exonGraph.o heap.o altSpliceSite.o pfamDat.o affyProbe.o altProbe.o dMatrix.o splice.o mouseAPSetEventMap.o ranlib ./aarch64/libSpliceGraph.a make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/altSplice/lib' cd altSplice && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/altSplice/altSplice' gcc -O -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 \ -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/sequenceForBed sequenceForBed.c ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a ../lib/aarch64/libSpliceGraph.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 \ -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/altAnalysis altAnalysis.c ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a ../lib/aarch64/libSpliceGraph.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 \ -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/altSplice altSplice.c ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a ../lib/aarch64/libSpliceGraph.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto altSplice.c: In function ‘convertBedsToGps’: altSplice.c:784:20: warning: the comparison will always evaluate as ‘false’ for the address of ‘strand’ will never be NULL [-Waddress] 784 | if(bedList->strand == NULL) | ^~ In file included from ../../inc/genePred.h:12, from ../../inc/bed.h:18, from ../../inc/altGraphX.h:16, from altSplice.c:62: ../../../inc/basicBed.h:28:10: note: ‘strand’ declared here 28 | char strand[2]; /* + or -. */ | ^~~~~~ gcc -O -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 \ -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/orthoSplice orthoSplice.c ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a ../lib/aarch64/libSpliceGraph.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 \ -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agxToBed agxToBed.c ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a ../lib/aarch64/libSpliceGraph.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 \ -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/altSummary altSummary.c ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a ../lib/aarch64/libSpliceGraph.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 \ -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedInGraph bedInGraph.c ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a ../lib/aarch64/libSpliceGraph.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 \ -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/consForBed consForBed.c ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a ../lib/aarch64/libSpliceGraph.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 \ -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/altPaths altPaths.c ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a ../lib/aarch64/libSpliceGraph.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 \ -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedToExons bedToExons.c ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a ../lib/aarch64/libSpliceGraph.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 \ -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredToPsl genePredToPsl.c ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a ../lib/aarch64/libSpliceGraph.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/altSplice/altSplice' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/altSplice' if test -d bedOrBlocks ; then cd bedOrBlocks && echo bedOrBlocks && make ; fi bedOrBlocks make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/bedOrBlocks' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedOrBlocks.o -c bedOrBlocks.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedOrBlocks bedOrBlocks.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedOrBlocks make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/bedOrBlocks' if test -d bedSplitOnChrom ; then cd bedSplitOnChrom && echo bedSplitOnChrom && make ; fi bedSplitOnChrom make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/bedSplitOnChrom' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedSplitOnChrom.o -c bedSplitOnChrom.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedSplitOnChrom bedSplitOnChrom.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedSplitOnChrom make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/bedSplitOnChrom' if test -d borfBig ; then cd borfBig && echo borfBig && make ; fi borfBig make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/borfBig' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o borfBig.o -c borfBig.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/borfBig borfBig.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/borfBig make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/borfBig' if test -d ctgFaToFa ; then cd ctgFaToFa && echo ctgFaToFa && make ; fi ctgFaToFa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ctgFaToFa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o ctgFaToFa.o -c ctgFaToFa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ctgFaToFa ctgFaToFa.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ctgFaToFa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ctgFaToFa' if test -d ctgToChromFa ; then cd ctgToChromFa && echo ctgToChromFa && make ; fi ctgToChromFa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ctgToChromFa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o ctgToChromFa.o -c ctgToChromFa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ctgToChromFa ctgToChromFa.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ctgToChromFa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ctgToChromFa' if test -d embossToPsl ; then cd embossToPsl && echo embossToPsl && make ; fi embossToPsl make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/embossToPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o embossToPsl.o -c embossToPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/embossToPsl embossToPsl.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/embossToPsl make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/embossToPsl' if test -d fakeFinContigs ; then cd fakeFinContigs && echo fakeFinContigs && make ; fi fakeFinContigs make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/fakeFinContigs' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o fakeFinContigs.o -c fakeFinContigs.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fakeFinContigs fakeFinContigs.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fakeFinContigs make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/fakeFinContigs' if test -d fakeOut ; then cd fakeOut && echo fakeOut && make ; fi fakeOut make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/fakeOut' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o fakeOut.o -c fakeOut.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fakeOut fakeOut.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fakeOut make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/fakeOut' if test -d ffaToFa ; then cd ffaToFa && echo ffaToFa && make ; fi ffaToFa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ffaToFa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o ffaToFa.o -c ffaToFa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ffaToFa ffaToFa.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ffaToFa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ffaToFa' if test -d fishClones ; then cd fishClones && echo fishClones && make ; fi fishClones make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/fishClones' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o fishClones.o -c fishClones.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fishClones fishClones.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fishClones make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/fishClones' if test -d fqToQa ; then cd fqToQa && echo fqToQa && make ; fi fqToQa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/fqToQa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o fqToQa.o -c fqToQa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fqToQa fqToQa.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fqToQa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/fqToQa' if test -d fqToQac ; then cd fqToQac && echo fqToQac && make ; fi fqToQac make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/fqToQac' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o fqToQac.o -c fqToQac.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fqToQac fqToQac.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fqToQac make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/fqToQac' if test -d fragPart ; then cd fragPart && echo fragPart && make ; fi fragPart make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/fragPart' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o fragPart.o -c fragPart.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fragPart fragPart.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fragPart make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/fragPart' if test -d gbGetEntries ; then cd gbGetEntries && echo gbGetEntries && make ; fi gbGetEntries make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gbGetEntries' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o gbGetEntries.o -c gbGetEntries.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gbGetEntries gbGetEntries.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gbGetEntries make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gbGetEntries' if test -d gbOneAcc ; then cd gbOneAcc && echo gbOneAcc && make ; fi gbOneAcc make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gbOneAcc' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o gbOneAcc.o -c gbOneAcc.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gbOneAcc gbOneAcc.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gbOneAcc make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gbOneAcc' if test -d gbToFaRa ; then cd gbToFaRa && echo gbToFaRa && make ; fi gbToFaRa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gbToFaRa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o gbToFaRa.o -c gbToFaRa.c gbToFaRa.c: In function ‘procOneGbFile’: gbToFaRa.c:1394:25: warning: ‘strncpy’ specified bound 32 equals destination size [-Wstringop-truncation] 1394 | strncpy(ae->accession, accession, sizeof(ae->accession)); | ^ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gbToFaRa gbToFaRa.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gbToFaRa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gbToFaRa' if test -d geneBounds ; then cd geneBounds && echo geneBounds && make ; fi geneBounds make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds' cd lib && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/lib' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o improbRunInfo.o -c improbRunInfo.c echo all done in hg/geneBounds/lib/ all done in hg/geneBounds/lib/ make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/lib' cd assessLibs && echo assessLibs && make assessLibs make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/assessLibs' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o assessLibs.o -c assessLibs.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/assessLibs assessLibs.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/assessLibs make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/assessLibs' cd averagExp && echo averagExp && make averagExp make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/averagExp' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o averagExp.o -c averagExp.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/averagExp averagExp.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/averagExp make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/averagExp' cd axtForEst && echo axtForEst && make axtForEst make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/axtForEst' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtForEst.o -c axtForEst.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtForEst axtForEst.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtForEst make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/axtForEst' cd bedCons && echo bedCons && make bedCons make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/bedCons' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bedCons.o -c bedCons.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedCons bedCons.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedCons make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/bedCons' cd checkableBorf && echo checkableBorf && make checkableBorf make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/checkableBorf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o checkableBorf.o -c checkableBorf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkableBorf checkableBorf.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkableBorf make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/checkableBorf' cd clusterGenes && echo clusterGenes && make clusterGenes make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/clusterGenes' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o clusterGenes.o -c clusterGenes.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/clusterGenes clusterGenes.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/clusterGenes make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/clusterGenes' cd clusterPsl && echo clusterPsl && make clusterPsl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/clusterPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o clusterPsl.o -c clusterPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/clusterPsl clusterPsl.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/clusterPsl make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/clusterPsl' cd clusterRna && echo clusterRna && make clusterRna make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/clusterRna' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o clusterRna.o -c clusterRna.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/clusterRna clusterRna.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/clusterRna make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/clusterRna' cd dnaMotifFind && echo dnaMotifFind && make dnaMotifFind make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/dnaMotifFind' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o dnaMotifFind.o -c dnaMotifFind.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dnaMotifFind dnaMotifFind.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dnaMotifFind make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/dnaMotifFind' cd eisenInput && echo eisenInput && make eisenInput make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/eisenInput' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o eisenInput.o -c eisenInput.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/eisenInput eisenInput.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/eisenInput make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/eisenInput' cd emblMatrixToMotif && echo emblMatrixToMotif && make emblMatrixToMotif make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/emblMatrixToMotif' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o emblMatrixToMotif.o -c emblMatrixToMotif.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/emblMatrixToMotif emblMatrixToMotif.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/emblMatrixToMotif make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/emblMatrixToMotif' cd estLibStats && echo estLibStats && make estLibStats make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/estLibStats' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o estLibStats.o -c estLibStats.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/estLibStats estLibStats.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/estLibStats make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/estLibStats' cd expToRna && echo expToRna && make expToRna make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/expToRna' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o expToRna.o -c expToRna.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/expToRna expToRna.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/expToRna make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/expToRna' cd iriToControlTable && echo iriToControlTable && make iriToControlTable make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/iriToControlTable' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o iriToControlTable.o -c iriToControlTable.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/iriToControlTable iriToControlTable.o ../lib/improbRunInfo.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/iriToControlTable make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/iriToControlTable' cd iriToDnaMotif && echo iriToDnaMotif && make iriToDnaMotif make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/iriToDnaMotif' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o iriToDnaMotif.o -c iriToDnaMotif.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/iriToDnaMotif iriToDnaMotif.o ../lib/improbRunInfo.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/iriToDnaMotif make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/iriToDnaMotif' cd liftPromoHits && echo liftPromoHits && make liftPromoHits make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/liftPromoHits' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o liftPromoHits.o -c liftPromoHits.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/liftPromoHits liftPromoHits.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/liftPromoHits make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/liftPromoHits' cd motifLogo && echo motifLogo && make motifLogo make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/motifLogo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o motifLogo.o -c motifLogo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/motifLogo motifLogo.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/motifLogo make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/motifLogo' cd motifSig && echo motifSig && make motifSig make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/motifSig' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o motifSig.o -c motifSig.c motifSig.c: In function ‘readMotif’: motifSig.c:73:1: warning: ‘strncpy’ specified bound 257 equals destination size [-Wstringop-truncation] 73 | strncpy(m->consensus, words[5], sizeof(m->consensus)); | ^ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/motifSig motifSig.o ../lib/improbRunInfo.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/motifSig make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/motifSig' cd orf && echo orf && make orf make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/orf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o orf.o -c orf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/orf orf.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/orf make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/orf' cd orfStats && echo orfStats && make orfStats make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/orfStats' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o orfStats.o -c orfStats.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/orfStats orfStats.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/orfStats make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/orfStats' cd polyInfo && echo polyInfo && make polyInfo make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/polyInfo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o polyInfo.o -c polyInfo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/polyInfo polyInfo.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/polyInfo make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/polyInfo' cd promoSeqFromCluster && echo promoSeqFromCluster && make promoSeqFromCluster make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/promoSeqFromCluster' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o promoSeqFromCluster.o -c promoSeqFromCluster.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/promoSeqFromCluster promoSeqFromCluster.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/promoSeqFromCluster make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/promoSeqFromCluster' cd raToCds && echo raToCds && make raToCds make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/raToCds' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o raToCds.o -c raToCds.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/raToCds raToCds.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/raToCds make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/raToCds' cd twinOrf && echo twinOrf && make twinOrf make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/twinOrf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o twinOrf.o -c twinOrf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twinOrf twinOrf.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twinOrf make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/twinOrf' cd twinOrf2 && echo twinOrf2 && make twinOrf2 make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/twinOrf2' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o twinOrf2.o -c twinOrf2.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twinOrf2 twinOrf2.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twinOrf2 make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/twinOrf2' cd twinOrf3 && echo twinOrf3 && make twinOrf3 make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/twinOrf3' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o twinOrf3.o -c twinOrf3.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twinOrf3 twinOrf3.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twinOrf3 make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/twinOrf3' cd twinOrfStats && echo twinOrfStats && make twinOrfStats make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/twinOrfStats' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o twinOrfStats.o -c twinOrfStats.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twinOrfStats twinOrfStats.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twinOrfStats make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/twinOrfStats' cd twinOrfStats2 && echo twinOrfStats2 && make twinOrfStats2 make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/twinOrfStats2' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o twinOrfStats2.o -c twinOrfStats2.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twinOrfStats2 twinOrfStats2.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twinOrfStats2 make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/twinOrfStats2' cd twinOrfStats3 && echo twinOrfStats3 && make twinOrfStats3 make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/twinOrfStats3' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o twinOrfStats3.o -c twinOrfStats3.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twinOrfStats3 twinOrfStats3.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twinOrfStats3 make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/twinOrfStats3' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds' if test -d getFeatDna ; then cd getFeatDna && echo getFeatDna && make ; fi getFeatDna make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/getFeatDna' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o getFeatDna.o -c getFeatDna.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/getFeatDna getFeatDna.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/getFeatDna make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/getFeatDna' if test -d gpStats ; then cd gpStats && echo gpStats && make ; fi gpStats make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gpStats' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o gpStats.o -c gpStats.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gpStats gpStats.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gpStats make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gpStats' if test -d gpToGtf ; then cd gpToGtf && echo gpToGtf && make ; fi gpToGtf make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gpToGtf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o gpToGtf.o -c gpToGtf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gpToGtf gpToGtf.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gpToGtf make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gpToGtf' if test -d gpcrParser ; then cd gpcrParser && echo gpcrParser && make ; fi gpcrParser make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gpcrParser' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o gpcrParser.o -c gpcrParser.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gpcrParser gpcrParser.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gpcrParser make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gpcrParser' if test -d gsBig ; then cd gsBig && echo gsBig && make ; fi gsBig make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gsBig' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o gsBig.o -c gsBig.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gsBig gsBig.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gsBig make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gsBig' if test -d hgTablesTest ; then cd hgTablesTest && echo hgTablesTest && make ; fi if test -d hgChroms ; then cd hgChroms && echo hgChroms && make ; fi hgChroms make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgChroms' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hgChroms.o -c hgChroms.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgChroms hgChroms.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgChroms make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgChroms' if test -d hgGetAnn ; then cd hgGetAnn && echo hgGetAnn && make ; fi hgGetAnn make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgGetAnn' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hgGetAnn.o -c hgGetAnn.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGetAnn hgGetAnn.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGetAnn make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgGetAnn' if test -d hgKnownGeneList ; then cd hgKnownGeneList && echo hgKnownGeneList && make ; fi hgKnownGeneList make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgKnownGeneList' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hgKnownGeneList.o -c hgKnownGeneList.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKnownGeneList hgKnownGeneList.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKnownGeneList make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgKnownGeneList' if test -d hgSelect ; then cd hgSelect && echo hgSelect && make ; fi hgSelect make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgSelect' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hgSelect.o -c hgSelect.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSelect hgSelect.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSelect make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgSelect' if test -d hgsqladmin ; then cd hgsqladmin && echo hgsqladmin && make ; fi hgsqladmin make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgsqladmin' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hgsqladmin.o -c hgsqladmin.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgsqladmin hgsqladmin.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgsqladmin make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgsqladmin' if test -d hgsqlimport ; then cd hgsqlimport && echo hgsqlimport && make ; fi hgsqlimport make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgsqlimport' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hgsqlimport.o -c hgsqlimport.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgsqlimport hgsqlimport.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgsqlimport make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgsqlimport' if test -d hgsqlSwapTables ; then cd hgsqlSwapTables && echo hgsqlSwapTables && make ; fi hgsqlSwapTables make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgsqlSwapTables' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hgsqlSwapTables.o -c hgsqlSwapTables.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgsqlSwapTables hgsqlSwapTables.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgsqlSwapTables make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgsqlSwapTables' if test -d hgsqlTableDate ; then cd hgsqlTableDate && echo hgsqlTableDate && make ; fi hgsqlTableDate make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgsqlTableDate' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hgsqlTableDate.o -c hgsqlTableDate.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgsqlTableDate hgsqlTableDate.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgsqlTableDate make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgsqlTableDate' if test -d intronEnds ; then cd intronEnds && echo intronEnds && make ; fi intronEnds make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/intronEnds' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o intronEnds.o -c intronEnds.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/intronEnds intronEnds.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/intronEnds make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/intronEnds' if test -d lib ; then cd lib && echo lib && make ; fi lib make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/lib' mkdir -p ../../lib/aarch64 ar rcus ../../lib/aarch64/jkhgap.a adjacency.o affyPairs.o agpFrag.o agpGap.o alignSeqSizes.o altGraphX.o asmAlias.o asmEquivalent.o asmSummary.o assemblyList.o autoUpgrade.o axtInfo.o barChartBed.o barChartCategory.o barChartUi.o bed.o bed12Source.o bedDetail.o bedMethyl.o bigBedFind.o bigBedLabel.o bigChain.o bigDbSnp.o bigGenePred.o bigLink.o bigPsl.o blastTab.o borf.o botDelay.o cart.o cartDb.o cartTrackDb.o cdsEvidence.o cdsOrtho.o cdsPick.o cgapSage/cgapSage.o cgapSage/cgapSageLib.o cgiApoptosis.o chainCart.o chainDb.o chainLink.o chainNet.o chainNetDbLoad.o chromAlias.o chromBins.o chromGraph.o chromGraphFactory.o chromInfo.o chromInserts.o chromKeeper.o clonePos.o cpgIsland.o ctgPos.o customAdjacency.o customComposite.o customFactory.o customPp.o customTrack.o cv.o cytoBand.o dbDb.o decoration.o decoratorUi.o defaultDb.o dnaMotifSql.o dupTrack.o encode/encodeErge.o encode/encodeErgeHssCellLines.o encode/encodeExp.o encode/encodeHapMapAlleleFreq.o encode/encodeIndels.o encode/encodePeak.o encode/encodeRegionInfoCustom.o encode/encodeRna.o encode/encodeStanfordPromoters.o encode/encodeStanfordPromotersAverage.o encode/peptideMapping.o encode/wgEncodeGencodeAnnotationRemark.o encode/wgEncodeGencodeAttrs.o encode/wgEncodeGencodeEntrezGene.o encode/wgEncodeGencodeExonSupport.o encode/wgEncodeGencodeGeneSource.o encode/wgEncodeGencodeGeneSymbol.o encode/wgEncodeGencodePdb.o encode/wgEncodeGencodePubMed.o encode/wgEncodeGencodeRefSeq.o encode/wgEncodeGencodeTag.o encode/wgEncodeGencodeTranscriptSource.o encode/wgEncodeGencodeTranscriptSupport.o encode/wgEncodeGencodeTranscriptionSupportLevel.o encode/wgEncodeGencodeUniProt.o encode3/encode3Valid.o estOrientInfo.o expData.o exportedDataHubs.o expRecord.o facetField.o facetedTable.o featureBits.o findKGAlias.o fakeCurl.o findKGProtAlias.o gbSeq.o gbExtFile.o gcPercent.o genark.o genbank.o genbankBlackList.o gencodeTracksCommon.o gencodeAttrs.o gencodeToRefSeq.o geneGraph.o genePred.o genePredReader.o geoMirror.o ggCluster.o ggDump.o ggGraph.o ggMrnaAli.o ggTypes.o glDbRep.o googleAnalytics.o gpFx.o grp.o gtexAse.o gtexDonor.o gtexGeneBed.o gtexInfo.o gtexSample.o gtexSampleData.o gtexTissue.o gtexTissueMedian.o gtexUi.o hCommon.o hPrint.o hVarSubst.o hapmapAllelesOrtho.o hapmapPhaseIIISummary.o hapmapSnps.o hdb.o hgColors.o hgConfig.o hgFind.o hgFindSpec.o hgFindSpecCustom.o hgHgvs.o hgHgvsParse.o hgMaf.o hgRelate.o hic.o hicUi.o hubConnect.o hubPublic.o hubSearchText.o hubSpace.o hubSpaceKeys.o hubSpaceQuotas.o hui.o imageClone.o indelShift.o interact.o interactUi.o itemAttr.o jksql.o joiner.o jsHelper.o kgAlias.o kgProtAlias.o kgXref.o knownInfo.o knownMore.o lav.o lfs.o liftOver.o liftOverChain.o liftUp.o longRange.o lrg.o lsSnpPdb.o mafFrames.o mafGene.o mafSummary.o makeItemsItem.o mdb.o microarray.o minChromSize.o namedSessionDb.o netAlign.o netCart.o pepPred.o pgPhenoAssoc.o pgSnp.o pslReader.o qaSeq.o quickLift.o quickLiftChain.o rankProp.o refLink.o refSeqStatus.o rikenCluster.o rmskAlign.o rmskJoined.o rmskOut.o rmskOut2.o rnaGene.o sage.o sageCounts.o samAlignment.o sample.o sanger22extra.o scoredRef.o sessionData.o seqWindow.o snakeUi.o snp.o snpExceptions.o soTerm.o spDb.o sqlProg.o sqlSanity.o stanMad.o stsAlias.o stsInfo2.o stsMap.o stsMarker.o tableStatus.o tablesTables.o tagRepo.o tfbsCons.o tigrCmrGene.o traceInfo.o trackDb.o trackDbCache.o trackDbCustom.o trackHub.o trackVersion.o trashDir.o txAliDiff.o txCluster.o txCommon.o txEdgeBed.o txGraph.o txInfo.o txRnaAccs.o userdata.o variantProjector.o vcfUi.o vegaInfo.o web.o wigAsciiToBinary.o wigDataStream.o wiggle.o wiggleCart.o wiggleUtils.o wikiLink.o wikiTrack.o bigRmskAlignBed.o bigRmskBed.o make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/lib' if test -d liftAcross ; then cd liftAcross && echo liftAcross && make ; fi liftAcross make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/liftAcross' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o liftAcross.o -c liftAcross.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/liftAcross liftAcross.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/liftAcross make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/liftAcross' if test -d liftAgp ; then cd liftAgp && echo liftAgp && make ; fi liftAgp make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/liftAgp' gcc -O -g -I../inc -I../../inc -o liftAgp liftAgp.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm mv liftAgp /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/liftAgp' if test -d liftFrags ; then cd liftFrags && echo liftFrags && make ; fi liftFrags make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/liftFrags' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o liftFrags.o -c liftFrags.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/liftFrags liftFrags.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/liftFrags make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/liftFrags' if test -d lfsOverlap ; then cd lfsOverlap && echo lfsOverlap && make ; fi lfsOverlap make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/lfsOverlap' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o lfsOverlap.o -c lfsOverlap.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/lfsOverlap lfsOverlap.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/lfsOverlap make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/lfsOverlap' if test -d makeDb ; then cd makeDb && echo makeDb && make ; fi makeDb make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb' cd hgAar && echo hgAar && make hgAar make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgAar' rm -f /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/aarToAxt cp -f aarToAxt /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/aarToAxt make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgAar' cd hgAddLiftOverChain && echo hgAddLiftOverChain && make hgAddLiftOverChain make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgAddLiftOverChain' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgAddLiftOverChain.o -c hgAddLiftOverChain.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgAddLiftOverChain hgAddLiftOverChain.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgAddLiftOverChain make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgAddLiftOverChain' cd hgClonePos && echo hgClonePos && make hgClonePos make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgClonePos' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgClonePos.o -c hgClonePos.c hgClonePos.c: In function ‘addStageInfo’: hgClonePos.c:182:8: warning: ‘strncpy’ specified bound 256 equals destination size [-Wstringop-truncation] 182 | strncpy(cloneName, words[1], sizeof(cloneName)); | ^ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o gsSeqInfo.o -c gsSeqInfo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgClonePos hgClonePos.o gsSeqInfo.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgClonePos make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgClonePos' cd hgCountAlign && echo hgCountAlign && make hgCountAlign make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgCountAlign' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgCountAlign.o -c hgCountAlign.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o align.o -c align.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o slidingWin.o -c slidingWin.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o winCounts.o -c winCounts.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgCountAlign hgCountAlign.o align.o slidingWin.o winCounts.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgCountAlign make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgCountAlign' cd hgCtgPos && echo hgCtgPos && make hgCtgPos make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgCtgPos' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgCtgPos.o -c hgCtgPos.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o liftSpec.o -c liftSpec.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgCtgPos hgCtgPos.o liftSpec.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgCtgPos make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgCtgPos' cd hgDeleteChrom && echo hgDeleteChrom && make hgDeleteChrom make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgDeleteChrom' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgDeleteChrom.o -c hgDeleteChrom.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgDeleteChrom hgDeleteChrom.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgDeleteChrom make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgDeleteChrom' cd hgExperiment && echo hgExperiment && make hgExperiment make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgExperiment' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgExperiment.o -c hgExperiment.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgExperiment hgExperiment.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgExperiment make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgExperiment' cd hgExtFileCheck && echo hgExtFileCheck && make hgExtFileCheck make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgExtFileCheck' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgExtFileCheck.o -c hgExtFileCheck.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgExtFileCheck hgExtFileCheck.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgExtFileCheck make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgExtFileCheck' cd hgFakeAgp && echo hgFakeAgp && make hgFakeAgp make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgFakeAgp' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgFakeAgp.o -c hgFakeAgp.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgFakeAgp hgFakeAgp.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgFakeAgp make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgFakeAgp' cd hgGeneBands && echo hgGeneBands && make hgGeneBands make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgGeneBands' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgGeneBands.o -c hgGeneBands.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGeneBands hgGeneBands.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGeneBands make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgGeneBands' cd hgGenericMicroarray && echo hgGenericMicroarray && make hgGenericMicroarray make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgGenericMicroarray' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgGenericMicroarray.o -c hgGenericMicroarray.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGenericMicroarray hgGenericMicroarray.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGenericMicroarray make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgGenericMicroarray' cd hgPar && echo hgPar && make hgPar make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgPar' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgPar.o -c hgPar.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o parSpec.o -c parSpec.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgPar hgPar.o parSpec.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgPar make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgPar' cd hgKgGetText && echo hgKgGetText && make hgKgGetText make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgKgGetText' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgKgGetText.o -c hgKgGetText.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKgGetText hgKgGetText.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKgGetText make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgKgGetText' cd hgKgMrna && echo hgKgMrna && make hgKgMrna make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgKgMrna' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgKgMrna.o -c hgKgMrna.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKgMrna hgKgMrna.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKgMrna make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgKgMrna' cd hgKnownMore && echo hgKnownMore && make hgKnownMore make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgKnownMore' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgKnownMore.o -c hgKnownMore.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hugoMulti.o -c hugoMulti.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKnownMore hgKnownMore.o hugoMulti.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKnownMore make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgKnownMore' cd hgKnownMore.oo21 && echo hgKnownMore.oo21 && make hgKnownMore.oo21 make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgKnownMore.oo21' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgKnownMore.o -c hgKnownMore.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hugoMulti.o -c hugoMulti.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKnownMore hgKnownMore.o hugoMulti.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKnownMore make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgKnownMore.oo21' cd hgLoadBlastTab && echo hgLoadBlastTab && make hgLoadBlastTab make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadBlastTab' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadBlastTab.o -c hgLoadBlastTab.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadBlastTab hgLoadBlastTab.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadBlastTab make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadBlastTab' cd hgLoadChromGraph && echo hgLoadChromGraph && make hgLoadChromGraph make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadChromGraph' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadChromGraph.o -c hgLoadChromGraph.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadChromGraph hgLoadChromGraph.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadChromGraph make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadChromGraph' cd hgLoadGenePred && echo hgLoadGenePred && make hgLoadGenePred make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadGenePred' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadGenePred.o -c hgLoadGenePred.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadGenePred hgLoadGenePred.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadGenePred make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadGenePred' cd hgLoadItemAttr && echo hgLoadItemAttr && make hgLoadItemAttr make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadItemAttr' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadItemAttr.o -c hgLoadItemAttr.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadItemAttr hgLoadItemAttr.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadItemAttr make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadItemAttr' cd hgLoadMafFrames && echo hgLoadMafFrames && make hgLoadMafFrames make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadMafFrames' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadMafFrames.o -c hgLoadMafFrames.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadMafFrames hgLoadMafFrames.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadMafFrames make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadMafFrames' cd hgLoadPsl && echo hgLoadPsl && make hgLoadPsl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadPsl.o -c hgLoadPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadPsl hgLoadPsl.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadPsl make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadPsl' cd hgLoadSeq && echo hgLoadSeq && make hgLoadSeq make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadSeq' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadSeq.o -c hgLoadSeq.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadSeq hgLoadSeq.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadSeq make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadSeq' cd hgLoadSample && echo hgLoadSample && make hgLoadSample make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadSample' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadSample.o -c hgLoadSample.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadSample hgLoadSample.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadSample make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadSample' cd hgLoadSqlTab && echo hgLoadSqlTab && make hgLoadSqlTab make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadSqlTab' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadSqlTab.o -c hgLoadSqlTab.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadSqlTab hgLoadSqlTab.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadSqlTab make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadSqlTab' cd hgMapMicroarray && echo hgMapMicroarray && make hgMapMicroarray make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgMapMicroarray' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgMapMicroarray.o -c hgMapMicroarray.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgMapMicroarray hgMapMicroarray.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgMapMicroarray make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgMapMicroarray' cd hgMedianMicroarray && echo hgMedianMicroarray && make hgMedianMicroarray make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgMedianMicroarray' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgMedianMicroarray.o -c hgMedianMicroarray.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgMedianMicroarray hgMedianMicroarray.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgMedianMicroarray make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgMedianMicroarray' cd hgNibSeq && echo hgNibSeq && make hgNibSeq make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgNibSeq' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgNibSeq.o -c hgNibSeq.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgNibSeq hgNibSeq.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgNibSeq make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgNibSeq' cd hgPepPred && echo hgPepPred && make hgPepPred make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgPepPred' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgPepPred.o -c hgPepPred.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgPepPred hgPepPred.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgPepPred make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgPepPred' cd hgRatioMicroarray && echo hgRatioMicroarray && make hgRatioMicroarray make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgRatioMicroarray' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgRatioMicroarray.o -c hgRatioMicroarray.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgRatioMicroarray hgRatioMicroarray.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgRatioMicroarray make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgRatioMicroarray' cd hgDropSplitTable && echo hgDropSplitTable && make hgDropSplitTable make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgDropSplitTable' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgDropSplitTable.o -c hgDropSplitTable.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgDropSplitTable hgDropSplitTable.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgDropSplitTable make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgDropSplitTable' cd hgRenameSplitTable && echo hgRenameSplitTable && make hgRenameSplitTable make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgRenameSplitTable' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgRenameSplitTable.o -c hgRenameSplitTable.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgRenameSplitTable hgRenameSplitTable.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgRenameSplitTable make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgRenameSplitTable' cd hgSanger20 && echo hgSanger20 && make hgSanger20 make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgSanger20' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgSanger20.o -c hgSanger20.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSanger20 hgSanger20.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSanger20 make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgSanger20' cd hgSanger22 && echo hgSanger22 && make hgSanger22 make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgSanger22' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgSanger22.o -c hgSanger22.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSanger22 hgSanger22.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSanger22 make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgSanger22' cd hgStanfordMicroarray && echo hgStanfordMicroarray && make hgStanfordMicroarray make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgStanfordMicroarray' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgStanfordMicroarray.o -c hgStanfordMicroarray.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgStanfordMicroarray hgStanfordMicroarray.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgStanfordMicroarray make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgStanfordMicroarray' cd hgStsAlias && echo hgStsAlias && make hgStsAlias make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgStsAlias' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgStsAlias.o -c hgStsAlias.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgStsAlias hgStsAlias.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgStsAlias make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgStsAlias' cd hgStsMarkers && echo hgStsMarkers && make hgStsMarkers make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgStsMarkers' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgStsMarkers.o -c hgStsMarkers.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgStsMarkers hgStsMarkers.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgStsMarkers make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgStsMarkers' cd hgTomRough && echo hgTomRough && make hgTomRough make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgTomRough' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgTomRough.o -c hgTomRough.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o tomRough.o -c tomRough.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgTomRough hgTomRough.o tomRough.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgTomRough make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgTomRough' cd hgTpf && echo hgTpf && make hgTpf make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgTpf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgTpf.o -c hgTpf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgTpf hgTpf.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgTpf make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgTpf' cd hgTraceInfo && echo hgTraceInfo && make hgTraceInfo make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgTraceInfo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgTraceInfo.o -c hgTraceInfo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgTraceInfo hgTraceInfo.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgTraceInfo make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgTraceInfo' cd hgWaba && echo hgWaba && make hgWaba make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgWaba' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgWaba.o -c hgWaba.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgWaba hgWaba.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgWaba make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgWaba' cd hgMrnaRefseq && echo hgMrnaRefseq && make hgMrnaRefseq make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgMrnaRefseq' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgMrnaRefseq.o -c hgMrnaRefseq.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgMrnaRefseq hgMrnaRefseq.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgMrnaRefseq make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgMrnaRefseq' cd mdbUpdate && echo mdbUpdate && make mdbUpdate make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/mdbUpdate' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mdbUpdate.o -c mdbUpdate.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mdbUpdate mdbUpdate.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lmariadb -lz -lpthread -lm -lssl -lcrypto true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mdbUpdate gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mdbPrint.o -c mdbPrint.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mdbPrint mdbPrint.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lmariadb -lz -lpthread -lm -lssl -lcrypto true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mdbPrint make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/mdbUpdate' cd schema && echo schema && make schema make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema' ( cd joinerCheck && echo joinerCheck && make ) joinerCheck make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema/joinerCheck' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o joinerCheck.o -c joinerCheck.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/joinerCheck joinerCheck.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/joinerCheck make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema/joinerCheck' ( cd joinerRoute && echo joinerRoute && make ) joinerRoute make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema/joinerRoute' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o joinerRoute.o -c joinerRoute.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/joinerRoute joinerRoute.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/joinerRoute make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema/joinerRoute' ( cd joinableFields && echo joinableFields && make ) joinableFields make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema/joinableFields' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o joinableFields.o -c joinableFields.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/joinableFields joinableFields.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/joinableFields make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema/joinableFields' ( cd makeTableDescriptions && echo makeTableDescriptions && make ) makeTableDescriptions make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema/makeTableDescriptions' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o makeTableDescriptions.o -c makeTableDescriptions.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/makeTableDescriptions makeTableDescriptions.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/makeTableDescriptions make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema/makeTableDescriptions' ( cd dbFindFieldsWith && echo dbFindFieldsWith && make ) dbFindFieldsWith make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema/dbFindFieldsWith' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o dbFindFieldsWith.o -c dbFindFieldsWith.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dbFindFieldsWith dbFindFieldsWith.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dbFindFieldsWith make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema/dbFindFieldsWith' ( cd dbSnoop && echo dbSnoop && make ) dbSnoop make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema/dbSnoop' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o dbSnoop.o -c dbSnoop.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dbSnoop dbSnoop.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dbSnoop make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema/dbSnoop' make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/schema' cd tfbsConsLoc && echo tfbsConsLoc && make tfbsConsLoc make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/tfbsConsLoc' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o tfbsConsLoc.o -c tfbsConsLoc.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o matt-maf.o -c matt-maf.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o tfbsConsLocUtil.o -c tfbsConsLocUtil.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o seq.o -c seq.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o util.o -c util.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tfbsConsLoc tfbsConsLoc.o matt-maf.o tfbsConsLocUtil.o seq.o util.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tfbsConsLoc make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/tfbsConsLoc' cd tfbsConsSort && echo tfbsConsSort && make tfbsConsSort make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/tfbsConsSort' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o tfbsConsSort.o -c tfbsConsSort.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tfbsConsSort tfbsConsSort.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tfbsConsSort make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/tfbsConsSort' cd outside && echo outside && make outside make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside' ( cd allenBrain/allenCollectSeq && echo allenBrain/allenCollectSeq && make ) allenBrain/allenCollectSeq make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/allenBrain/allenCollectSeq' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../../htslib -I/usr/include/libpng16 -o allenCollectSeq.o -c allenCollectSeq.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/allenCollectSeq allenCollectSeq.o ../../../../../lib/aarch64/jkhgap.a ../../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/allenCollectSeq make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/allenBrain/allenCollectSeq' ( cd exonerateGffDoctor && echo exonerateGffDoctor && make ) exonerateGffDoctor make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/exonerateGffDoctor' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o exonerateGffDoctor.o -c exonerateGffDoctor.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/exonerateGffDoctor exonerateGffDoctor.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/exonerateGffDoctor make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/exonerateGffDoctor' ( cd hgAvidShortBed && echo hgAvidShortBed && make ) hgAvidShortBed make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgAvidShortBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgAvidShortBed.o -c hgAvidShortBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgAvidShortBed hgAvidShortBed.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgAvidShortBed make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgAvidShortBed' ( cd hgBioCyc && echo hgBioCyc && make ) hgBioCyc make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgBioCyc' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgBioCyc.o -c hgBioCyc.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgBioCyc hgBioCyc.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgBioCyc make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgBioCyc' ( cd hgCGAP && echo hgCGAP && make ) hgCGAP make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgCGAP' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgCGAP.o -c hgCGAP.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgCGAP hgCGAP.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgCGAP make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgCGAP' ( cd hgExonerate && echo hgExonerate && make ) hgExonerate make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgExonerate' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgExonerate.o -c hgExonerate.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgExonerate hgExonerate.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgExonerate make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgExonerate' ( cd hgFiberglass && echo hgFiberglass && make ) hgFiberglass make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgFiberglass' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgFiberglass.o -c hgFiberglass.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgFiberglass hgFiberglass.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgFiberglass make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgFiberglass' ( cd hgFlyBase && echo hgFlyBase && make ) hgFlyBase make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgFlyBase' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgFlyBase.o -c hgFlyBase.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgFlyBase hgFlyBase.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgFlyBase make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgFlyBase' ( cd hgGnfMicroarray && echo hgGnfMicroarray && make ) hgGnfMicroarray make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgGnfMicroarray' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgGnfMicroarray.o -c hgGnfMicroarray.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGnfMicroarray hgGnfMicroarray.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGnfMicroarray make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgGnfMicroarray' ( cd hgGtex && echo hgGtex && make ) hgGtex make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgGtex' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgGtex.o -c hgGtex.c hgGtex.c: In function ‘hgGtexTissues’: hgGtex.c:616:5: warning: variable ‘i’ set but not used [-Wunused-but-set-variable=] 616 | int i; | ^ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGtex hgGtex.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGtex make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgGtex' ( cd hgGtexAse && echo hgGtexAse && make ) hgGtexAse make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgGtexAse' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgGtexAse.o -c hgGtexAse.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGtexAse hgGtexAse.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGtexAse make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgGtexAse' ( cd hgGtexExonBed && echo hgGtexExonBed && make ) hgGtexExonBed make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgGtexExonBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgGtexExonBed.o -c hgGtexExonBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGtexExonBed hgGtexExonBed.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGtexExonBed make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgGtexExonBed' ( cd hgGtexGeneBed && echo hgGtexGeneBed && make ) hgGtexGeneBed make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgGtexGeneBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgGtexGeneBed.o -c hgGtexGeneBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGtexGeneBed hgGtexGeneBed.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGtexGeneBed make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgGtexGeneBed' ( cd hgJaxQtl && echo hgJaxQtl && make ) hgJaxQtl make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgJaxQtl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgJaxQtl.o -c hgJaxQtl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgJaxQtl hgJaxQtl.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgJaxQtl make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgJaxQtl' ( cd hgKegg && echo hgKegg && make ) hgKegg make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgKegg' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgKegg.o -c hgKegg.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKegg hgKegg.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKegg make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgKegg' ( cd hgKegg2 && echo hgKegg2 && make ) hgKegg2 make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgKegg2' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgKegg2.o -c hgKegg2.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKegg2 hgKegg2.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKegg2 make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgKegg2' ( cd hgKegg3 && echo hgKegg3 && make ) hgKegg3 make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgKegg3' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgKegg3.o -c hgKegg3.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKegg3 hgKegg3.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgKegg3 make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgKegg3' ( cd hgLoadEranModules && echo hgLoadEranModules && make ) hgLoadEranModules make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgLoadEranModules' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgLoadEranModules.o -c hgLoadEranModules.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o esMotif.o -c esMotif.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadEranModules hgLoadEranModules.o esMotif.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadEranModules make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgLoadEranModules' ( cd hgLsSnpPdbLoad && echo hgLsSnpPdbLoad && make ) hgLsSnpPdbLoad make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgLsSnpPdbLoad' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgLsSnpPdbLoad.o -c hgLsSnpPdbLoad.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLsSnpPdbLoad hgLsSnpPdbLoad.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLsSnpPdbLoad make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgLsSnpPdbLoad' ( cd hgPhMouse && echo hgPhMouse && make ) hgPhMouse make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgPhMouse' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgPhMouse.o -c hgPhMouse.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgPhMouse hgPhMouse.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgPhMouse make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgPhMouse' ( cd hgRnaGenes && echo hgRnaGenes && make ) hgRnaGenes make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgRnaGenes' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgRnaGenes.o -c hgRnaGenes.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgRnaGenes hgRnaGenes.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgRnaGenes make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgRnaGenes' ( cd hgSoftPromoter && echo hgSoftPromoter && make ) hgSoftPromoter make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgSoftPromoter' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgSoftPromoter.o -c hgSoftPromoter.c hgSoftPromoter.c: In function ‘simplifyName’: hgSoftPromoter.c:35:5: warning: ‘strncpy’ specified bound 256 equals destination size [-Wstringop-truncation] 35 | strncpy(simple, softName, sizeof(simple)); | ^ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSoftPromoter hgSoftPromoter.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSoftPromoter make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgSoftPromoter' ( cd hgSoftberryHom && echo hgSoftberryHom && make ) hgSoftberryHom make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgSoftberryHom' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgSoftberryHom.o -c hgSoftberryHom.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSoftberryHom hgSoftberryHom.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSoftberryHom make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgSoftberryHom' ( cd hgSuperfam && echo hgSuperfam && make ) hgSuperfam make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgSuperfam' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o hgSuperfam.o -c hgSuperfam.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSuperfam hgSuperfam.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSuperfam make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/hgSuperfam' ( cd nibb/nibbImageProbes && echo nibb/nibbImageProbes && make ) nibb/nibbImageProbes make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/nibb/nibbImageProbes' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../../htslib -I/usr/include/libpng16 -o nibbImageProbes.o -c nibbImageProbes.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nibbImageProbes nibbImageProbes.o ../../../../../lib/aarch64/jkhgap.a ../../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nibbImageProbes make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/nibb/nibbImageProbes' ( cd nibb/nibbNameFix && echo nibb/nibbNameFix && make ) nibb/nibbNameFix make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/nibb/nibbNameFix' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../../htslib -I/usr/include/libpng16 -o nibbNameFix.o -c nibbNameFix.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nibbNameFix nibbNameFix.o ../../../../../lib/aarch64/jkhgap.a ../../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nibbNameFix make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/nibb/nibbNameFix' ( cd nibb/nibbParseImageDir && echo nibb/nibbParseImageDir && make ) nibb/nibbParseImageDir make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/nibb/nibbParseImageDir' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../../htslib -I/usr/include/libpng16 -o nibbParseImageDir.o -c nibbParseImageDir.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nibbParseImageDir nibbParseImageDir.o ../../../../../lib/aarch64/jkhgap.a ../../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nibbParseImageDir make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/nibb/nibbParseImageDir' ( cd nibb/nibbPrepImages && echo nibb/nibbPrepImages && make ) nibb/nibbPrepImages make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/nibb/nibbPrepImages' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../../htslib -I/usr/include/libpng16 -o nibbPrepImages.o -c nibbPrepImages.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nibbPrepImages nibbPrepImages.o ../../../../../lib/aarch64/jkhgap.a ../../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nibbPrepImages make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/nibb/nibbPrepImages' ( cd samHit && echo samHit && make ) samHit make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/samHit' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o samHit.o -c samHit.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/samHit samHit.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/samHit make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/samHit' ( cd sanger22gtf && echo sanger22gtf && make ) sanger22gtf make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/sanger22gtf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o sanger22gtf.o -c sanger22gtf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/sanger22gtf sanger22gtf.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/sanger22gtf make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/sanger22gtf' ( cd vegaBuildInfo && echo vegaBuildInfo && make ) vegaBuildInfo make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/vegaBuildInfo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../htslib -I/usr/include/libpng16 -o vegaBuildInfo.o -c vegaBuildInfo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/vegaBuildInfo vegaBuildInfo.o ../../../../lib/aarch64/jkhgap.a ../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/vegaBuildInfo make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/vegaBuildInfo' ( cd yeast/checkSgdSync && echo yeast/checkSgdSync && make ) yeast/checkSgdSync make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/yeast/checkSgdSync' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../../htslib -I/usr/include/libpng16 -o checkSgdSync.o -c checkSgdSync.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkSgdSync checkSgdSync.o ../../../../../lib/aarch64/jkhgap.a ../../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkSgdSync make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/yeast/checkSgdSync' ( cd yeast/fixHarbisonMotifs && echo yeast/fixHarbisonMotifs && make ) yeast/fixHarbisonMotifs make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/yeast/fixHarbisonMotifs' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../../htslib -I/usr/include/libpng16 -o fixHarbisonMotifs.o -c fixHarbisonMotifs.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fixHarbisonMotifs fixHarbisonMotifs.o ../../../../../lib/aarch64/jkhgap.a ../../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fixHarbisonMotifs make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/yeast/fixHarbisonMotifs' ( cd yeast/hgSgdGff3 && echo yeast/hgSgdGff3 && make ) yeast/hgSgdGff3 make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/yeast/hgSgdGff3' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../../htslib -I/usr/include/libpng16 -o hgSgdGff3.o -c hgSgdGff3.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSgdGff3 hgSgdGff3.o ../../../../../lib/aarch64/jkhgap.a ../../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSgdGff3 make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/yeast/hgSgdGff3' ( cd yeast/hgSgdGfp && echo yeast/hgSgdGfp && make ) yeast/hgSgdGfp make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/yeast/hgSgdGfp' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../../htslib -I/usr/include/libpng16 -o hgSgdGfp.o -c hgSgdGfp.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSgdGfp hgSgdGfp.o ../../../../../lib/aarch64/jkhgap.a ../../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSgdGfp make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/yeast/hgSgdGfp' ( cd yeast/hgSgdPep && echo yeast/hgSgdPep && make ) yeast/hgSgdPep make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/yeast/hgSgdPep' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../../htslib -I/usr/include/libpng16 -o hgSgdPep.o -c hgSgdPep.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSgdPep hgSgdPep.o ../../../../../lib/aarch64/jkhgap.a ../../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSgdPep make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/yeast/hgSgdPep' ( cd yeast/hgYeastRegCode && echo yeast/hgYeastRegCode && make ) yeast/hgYeastRegCode make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/yeast/hgYeastRegCode' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../../../htslib -I/usr/include/libpng16 -o hgYeastRegCode.o -c hgYeastRegCode.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgYeastRegCode hgYeastRegCode.o ../../../../../lib/aarch64/jkhgap.a ../../../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgYeastRegCode make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside/yeast/hgYeastRegCode' make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/outside' cd trackDbRaFormat && echo trackDbRaFormat && make trackDbRaFormat make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/trackDbRaFormat' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o trackDbRaFormat.o -c trackDbRaFormat.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trackDbRaFormat trackDbRaFormat.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trackDbRaFormat make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/trackDbRaFormat' cd trackDbPatch && echo trackDbPatch && make trackDbPatch make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/trackDbPatch' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o trackDbPatch.o -c trackDbPatch.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trackDbPatch trackDbPatch.o ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/trackDbPatch' cd trackDbToTxt && echo trackDbToTxt && make trackDbToTxt make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/trackDbToTxt' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o trackDbToTxt.o -c trackDbToTxt.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trackDbToTxt trackDbToTxt.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trackDbToTxt make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/trackDbToTxt' cd dbDbToHubTxt && echo dbDbToHubTxt && make dbDbToHubTxt make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/dbDbToHubTxt' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o dbDbToHubTxt.o -c dbDbToHubTxt.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dbDbToHubTxt dbDbToHubTxt.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dbDbToHubTxt make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/dbDbToHubTxt' cd hgBbiDbLink && echo hgBbiDbLink && make hgBbiDbLink make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgBbiDbLink' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgBbiDbLink.o -c hgBbiDbLink.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgBbiDbLink hgBbiDbLink.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgBbiDbLink make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgBbiDbLink' cd hgFindSpec && echo hgFindSpec && make hgFindSpec make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgFindSpec' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgFindSpec.o -c hgFindSpec.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgFindSpec hgFindSpec.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgFindSpec make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgFindSpec' cd hgGoldGapGl && echo hgGoldGapGl && make hgGoldGapGl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgGoldGapGl' make default PROG=hgGoldGapGl make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgGoldGapGl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgGoldGapGl.o -c hgGoldGapGl.c hgGoldGapGl.c: In function ‘makeCloneVerHash’: hgGoldGapGl.c:341:5: warning: ‘strncpy’ specified bound 32 equals destination size [-Wstringop-truncation] 341 | strncpy(acc, row[0], sizeof(acc)); | ^ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o ntContig.o -c ntContig.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGoldGapGl hgGoldGapGl.o ntContig.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGoldGapGl make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgGoldGapGl' make default PROG=hgLoadGap make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgGoldGapGl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadGap.o -c hgLoadGap.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadGap hgLoadGap.o ntContig.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadGap make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgGoldGapGl' make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgGoldGapGl' cd hgLoadBed && echo hgLoadBed && make hgLoadBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadBed.o -c hgLoadBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadBed hgLoadBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadBed' cd hgLoadChain && echo hgLoadChain && make hgLoadChain make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadChain' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadChain.o -c hgLoadChain.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadChain hgLoadChain.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadChain make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadChain' cd hgLoadMaf && echo hgLoadMaf && make hgLoadMaf make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadMaf' make default PROG=hgLoadMaf make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadMaf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadMaf.o -c hgLoadMaf.c hgLoadMaf.c: In function ‘hgLoadMaf’: hgLoadMaf.c:126:16: warning: storing the address of local variable ‘extFileDir’ in ‘pathPrefix’ [-Wdangling-pointer=] 126 | pathPrefix = extFileDir; | ~~~~~~~~~~~^~~~~~~~~~~~ hgLoadMaf.c:105:6: note: ‘extFileDir’ declared here 105 | char extFileDir[PATH_LEN]; | ^~~~~~~~~~ hgLoadMaf.c:46:7: note: ‘pathPrefix’ declared here 46 | char *pathPrefix = NULL; /* extFile directory */ | ^~~~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadMaf hgLoadMaf.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadMaf make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadMaf' make default PROG=hgLoadMafSummary make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadMaf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadMafSummary.o -c hgLoadMafSummary.c hgLoadMafSummary.c: In function ‘hgLoadMafSummary’: hgLoadMafSummary.c:263:6: warning: variable ‘mafCount’ set but not used [-Wunused-but-set-variable=] 263 | long mafCount = 0, allMafCount = 0; | ^~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadMafSummary hgLoadMafSummary.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadMafSummary make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadMaf' make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadMaf' cd hgLoadNet && echo hgLoadNet && make hgLoadNet make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadNet' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadNet.o -c hgLoadNet.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadNet hgLoadNet.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadNet make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadNet' cd hgLoadOut && echo hgLoadOut && make hgLoadOut make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadOut' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadOut.o -c hgLoadOut.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadOut hgLoadOut.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadOut make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadOut' cd hgLoadOutJoined && echo hgLoadOutJoined && make hgLoadOutJoined make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadOutJoined' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadOutJoined.o -c hgLoadOutJoined.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadOutJoined hgLoadOutJoined.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadOutJoined make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadOutJoined' cd hgGcPercent && echo hgGcPercent && make hgGcPercent make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgGcPercent' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgGcPercent.o -c hgGcPercent.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGcPercent hgGcPercent.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgGcPercent make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgGcPercent' cd hgLoadWiggle && echo hgLoadWiggle && make hgLoadWiggle make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadWiggle' make default PROG=hgLoadWiggle make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadWiggle' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadWiggle.o -c hgLoadWiggle.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadWiggle hgLoadWiggle.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadWiggle mkdir -p /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ cp -f fixStepToBedGraph.pl /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fixStepToBedGraph.pl mkdir -p /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ cp -f varStepToBedGraph.pl /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/varStepToBedGraph.pl make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadWiggle' make default PROG=hgWiggle make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadWiggle' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgWiggle.o -c hgWiggle.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgWiggle hgWiggle.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgWiggle make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadWiggle' make default PROG=wigEncode make[5]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadWiggle' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o wigEncode.o -c wigEncode.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/wigEncode wigEncode.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/wigEncode make[5]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadWiggle' make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgLoadWiggle' cd hgTrackDb && echo hgTrackDb && make hgTrackDb make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgTrackDb' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgTrackDb.o -c hgTrackDb.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgTrackDb hgTrackDb.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgTrackDb make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/hgTrackDb' cd ldHgGene && echo ldHgGene && make ldHgGene make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/ldHgGene' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o ldHgGene.o -c ldHgGene.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ldHgGene ldHgGene.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ldHgGene make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb/ldHgGene' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/makeDb' if test -d mdToNcbiLift ; then cd mdToNcbiLift && echo mdToNcbiLift && make ; fi mdToNcbiLift make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mdToNcbiLift' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o mdToNcbiLift.o -c mdToNcbiLift.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mdToNcbiLift mdToNcbiLift.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mdToNcbiLift make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mdToNcbiLift' if test -d mouseStuff ; then cd mouseStuff && echo mouseStuff && make ; fi mouseStuff make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff' if test -d axtAndBed ; then cd axtAndBed && echo axtAndBed && make ; fi axtAndBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtAndBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtAndBed.o -c axtAndBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtAndBed axtAndBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtAndBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtAndBed' if test -d axtBest ; then cd axtBest && echo axtBest && make ; fi axtBest make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtBest' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtBest.o -c axtBest.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtBest axtBest.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtBest make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtBest' if test -d axtCalcMatrix ; then cd axtCalcMatrix && echo axtCalcMatrix && make ; fi axtCalcMatrix make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtCalcMatrix' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtCalcMatrix.o -c axtCalcMatrix.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtCalcMatrix axtCalcMatrix.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtCalcMatrix make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtCalcMatrix' if test -d axtDropOverlap ; then cd axtDropOverlap && echo axtDropOverlap && make ; fi axtDropOverlap make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtDropOverlap' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtDropOverlap.o -c axtDropOverlap.c axtDropOverlap.c: In function ‘axtDropOverlap’: axtDropOverlap.c:61:5: warning: variable ‘totLines’ set but not used [-Wunused-but-set-variable=] 61 | int totLines = 0; | ^~~~~~~~ axtDropOverlap.c:60:5: warning: variable ‘totSkip’ set but not used [-Wunused-but-set-variable=] 60 | int totSkip = 0; | ^~~~~~~ axtDropOverlap.c:59:5: warning: variable ‘totMatch’ set but not used [-Wunused-but-set-variable=] 59 | int totMatch = 0; | ^~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtDropOverlap axtDropOverlap.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtDropOverlap make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtDropOverlap' if test -d axtDropSelf ; then cd axtDropSelf && echo axtDropSelf && make ; fi axtDropSelf make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtDropSelf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtDropSelf.o -c axtDropSelf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtDropSelf axtDropSelf.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtDropSelf make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtDropSelf' if test -d axtFilter ; then cd axtFilter && echo axtFilter && make ; fi axtFilter make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtFilter' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtFilter.o -c axtFilter.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtFilter axtFilter.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtFilter make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtFilter' if test -d axtIndex ; then cd axtIndex && echo axtIndex && make ; fi axtIndex make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtIndex' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtIndex.o -c axtIndex.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtIndex axtIndex.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtIndex make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtIndex' if test -d axtPretty ; then cd axtPretty && echo axtPretty && make ; fi axtPretty make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtPretty' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtPretty.o -c axtPretty.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtPretty axtPretty.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtPretty make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtPretty' if test -d axtQueryCount ; then cd axtQueryCount && echo axtQueryCount && make ; fi axtQueryCount make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtQueryCount' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtQueryCount.o -c axtQueryCount.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtQueryCount axtQueryCount.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtQueryCount make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtQueryCount' if test -d axtRecipBest ; then cd axtRecipBest && echo axtRecipBest && make ; fi axtRecipBest make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtRecipBest' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtRecipBest.o -c axtRecipBest.c axtRecipBest.c: In function ‘axtRecipBest’: axtRecipBest.c:223:13: warning: variable ‘filesInMidFile’ set but not used [-Wunused-but-set-variable=] 223 | int filesInMidFile = 0; | ^~~~~~~~~~~~~~ axtRecipBest.c:196:5: warning: variable ‘totalT’ set but not used [-Wunused-but-set-variable=] 196 | int totalT = 0; | ^~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtRecipBest axtRecipBest.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtRecipBest make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtRecipBest' if test -d axtRescore ; then cd axtRescore && echo axtRescore && make ; fi axtRescore make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtRescore' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtRescore.o -c axtRescore.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtRescore axtRescore.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtRescore make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtRescore' if test -d axtSplitByTarget ; then cd axtSplitByTarget && echo axtSplitByTarget && make ; fi axtSplitByTarget make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtSplitByTarget' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtSplitByTarget.o -c axtSplitByTarget.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtSplitByTarget axtSplitByTarget.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtSplitByTarget make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtSplitByTarget' if test -d axtToBed ; then cd axtToBed && echo axtToBed && make ; fi axtToBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtToBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtToBed.o -c axtToBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtToBed axtToBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtToBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtToBed' if test -d axtToChain ; then cd axtToChain && echo axtToChain && make ; fi axtToChain make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtToChain' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtToChain.o -c axtToChain.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtToChain axtToChain.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtToChain make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtToChain' if test -d calcGap ; then cd calcGap && echo calcGap && make ; fi calcGap make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/calcGap' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o calcGap.o -c calcGap.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/calcGap calcGap.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/calcGap make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/calcGap' if test -d chainDbToFile ; then cd chainDbToFile && echo chainDbToFile && make ; fi chainDbToFile make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainDbToFile' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainDbToFile.o -c chainDbToFile.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainDbToFile chainDbToFile.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainDbToFile make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainDbToFile' if test -d gcForBed ; then cd gcForBed && echo gcForBed && make ; fi gcForBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/gcForBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o gcForBed.o -c gcForBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gcForBed gcForBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gcForBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/gcForBed' if test -d knownVsBlat ; then cd knownVsBlat && echo knownVsBlat && make ; fi knownVsBlat make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/knownVsBlat' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o knownVsBlat.o -c knownVsBlat.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o blatStats.o -c blatStats.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/knownVsBlat knownVsBlat.o blatStats.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lmariadb -lz -lpthread -lm -lssl -lcrypto true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/knownVsBlat gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o kvsSummary.o -c kvsSummary.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/kvsSummary kvsSummary.o blatStats.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lmariadb -lz -lpthread -lm -lssl -lcrypto true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/kvsSummary make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/knownVsBlat' if test -d libScan ; then cd libScan && echo libScan && make ; fi libScan make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/libScan' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o libScan.o -c libScan.c libScan.c: In function ‘libScan’: libScan.c:131:13: warning: ‘strncpy’ specified bound 12 equals destination size [-Wstringop-truncation] 131 | strncpy(lib->sampleAcc, row[3], sizeof(lib->sampleAcc)); | ^ libScan.c:125:9: warning: ‘strncpy’ specified bound 12 equals destination size [-Wstringop-truncation] 125 | strncpy(lib->sampleAcc, row[3], sizeof(lib->sampleAcc)); | ^ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/libScan libScan.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/libScan make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/libScan' if test -d mousePoster ; then cd mousePoster && echo mousePoster && make ; fi mousePoster make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mousePoster' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mousePoster.o -c mousePoster.c mousePoster.c: In function ‘makeLocusLinkToJaxHash’: mousePoster.c:211:5: warning: variable ‘count’ set but not used [-Wunused-but-set-variable=] 211 | int count = 0; | ^~~~~ mousePoster.c: In function ‘parseMorbidMap’: mousePoster.c:244:15: warning: variable ‘syns’ set but not used [-Wunused-but-set-variable=] 244 | int loci = 0, syns = 0; | ^~~~ mousePoster.c:244:5: warning: variable ‘loci’ set but not used [-Wunused-but-set-variable=] 244 | int loci = 0, syns = 0; | ^~~~ mousePoster.c: In function ‘makeDiseaseOrthoHash’: mousePoster.c:272:5: warning: variable ‘count’ set but not used [-Wunused-but-set-variable=] 272 | int count = 0; | ^~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mousePoster mousePoster.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mousePoster make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mousePoster' if test -d netStats ; then cd netStats && echo netStats && make ; fi netStats make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netStats' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o netStats.o -c netStats.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netStats netStats.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netStats make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netStats' if test -d netToBedWithId ; then cd netToBedWithId && echo netToBedWithId && make ; fi netToBedWithId make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netToBedWithId' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o netToBedWithId.o -c netToBedWithId.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netToBedWithId netToBedWithId.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netToBedWithId make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netToBedWithId' if test -d orthologBySynteny ; then cd orthologBySynteny && echo orthologBySynteny && make ; fi orthologBySynteny make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/orthologBySynteny' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o orthologBySynteny.o -c orthologBySynteny.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/orthologBySynteny orthologBySynteny.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/orthologBySynteny make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/orthologBySynteny' if test -d phToPsl ; then cd phToPsl && echo phToPsl && make ; fi phToPsl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/phToPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o phToPsl.o -c phToPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/phToPsl phToPsl.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/phToPsl make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/phToPsl' if test -d regionPicker ; then cd regionPicker && echo regionPicker && make ; fi regionPicker make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/regionPicker' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o regionPicker.o -c regionPicker.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/regionPicker regionPicker.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl In function ‘memset’, inlined from ‘zeroBytes’ at ../../../inc/common.h:327:1, inlined from ‘bitClear’ at ../../../lib/bits.c:224:1, inlined from ‘statsOnSpan’ at regionPicker.c:339:1, inlined from ‘regionPicker’ at regionPicker.c:703:6, inlined from ‘main’ at regionPicker.c:732:1: /usr/include/bits/string_fortified.h:59:10: warning: ‘__builtin_memset’ specified size between 18446744073441116160 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 59 | return __builtin___memset_chk (__dest, __ch, __len, | ^ true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/regionPicker make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/regionPicker' if test -d rikenBestInCluster ; then cd rikenBestInCluster && echo rikenBestInCluster && make ; fi rikenBestInCluster make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/rikenBestInCluster' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o rikenBestInCluster.o -c rikenBestInCluster.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/rikenBestInCluster rikenBestInCluster.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/rikenBestInCluster make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/rikenBestInCluster' if test -d simpleChain ; then cd simpleChain && echo simpleChain && make ; fi simpleChain make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/simpleChain' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o simpleChain.o -c simpleChain.c simpleChain.c: In function ‘simpleChain’: simpleChain.c:450:9: warning: variable ‘count’ set but not used [-Wunused-but-set-variable=] 450 | int count = 0; | ^~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/simpleChain simpleChain.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/simpleChain make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/simpleChain' if test -d splitSim ; then cd splitSim && echo splitSim && make ; fi splitSim make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/splitSim' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o splitSim.o -c splitSim.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/splitSim splitSim.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/splitSim make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/splitSim' if test -d subsetAxt ; then cd subsetAxt && echo subsetAxt && make ; fi subsetAxt make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/subsetAxt' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o subsetAxt.o -c subsetAxt.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/subsetAxt subsetAxt.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/subsetAxt make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/subsetAxt' if test -d subsetTraces ; then cd subsetTraces && echo subsetTraces && make ; fi subsetTraces make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/subsetTraces' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o subsetTraces.o -c subsetTraces.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/subsetTraces subsetTraces.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/subsetTraces make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/subsetTraces' if test -d whyConserved ; then cd whyConserved && echo whyConserved && make ; fi whyConserved make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/whyConserved' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o whyConserved.o -c whyConserved.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/whyConserved whyConserved.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lmariadb -lz -lpthread -lm -lssl -lcrypto true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/whyConserved gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o trackOverlap.o -c trackOverlap.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trackOverlap trackOverlap.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lmariadb -lz -lpthread -lm -lssl -lcrypto true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trackOverlap make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/whyConserved' if test -d axtChain ; then cd axtChain && echo axtChain && make ; fi axtChain make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtChain' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtChain.o -c axtChain.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtChain axtChain.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtChain make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtChain' if test -d axtSort ; then cd axtSort && echo axtSort && make ; fi axtSort make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtSort' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtSort.o -c axtSort.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtSort axtSort.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtSort make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtSort' if test -d axtSwap ; then cd axtSwap && echo axtSwap && make ; fi axtSwap make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtSwap' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtSwap.o -c axtSwap.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtSwap axtSwap.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtSwap make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtSwap' if test -d axtToMaf ; then cd axtToMaf && echo axtToMaf && make ; fi axtToMaf make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtToMaf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtToMaf.o -c axtToMaf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtToMaf axtToMaf.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtToMaf make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtToMaf' if test -d axtToPsl ; then cd axtToPsl && echo axtToPsl && make ; fi axtToPsl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtToPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o axtToPsl.o -c axtToPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtToPsl axtToPsl.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/axtToPsl make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/axtToPsl' if test -d bedCoverage ; then cd bedCoverage && echo bedCoverage && make ; fi bedCoverage make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/bedCoverage' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bedCoverage.o -c bedCoverage.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedCoverage bedCoverage.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedCoverage make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/bedCoverage' if test -d chainAntiRepeat ; then cd chainAntiRepeat && echo chainAntiRepeat && make ; fi chainAntiRepeat make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainAntiRepeat' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainAntiRepeat.o -c chainAntiRepeat.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainAntiRepeat chainAntiRepeat.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainAntiRepeat make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainAntiRepeat' if test -d chainBridge ; then cd chainBridge && echo chainBridge && make ; fi if test -d chainCleaner ; then cd chainCleaner && echo chainCleaner && make ; fi chainCleaner make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainCleaner' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainCleaner.o -c chainCleaner.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainCleaner chainCleaner.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainCleaner make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainCleaner' if test -d chainFilter ; then cd chainFilter && echo chainFilter && make ; fi chainFilter make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainFilter' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainFilter.o -c chainFilter.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainFilter chainFilter.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainFilter make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainFilter' if test -d chainMergeSort ; then cd chainMergeSort && echo chainMergeSort && make ; fi chainMergeSort make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainMergeSort' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainMergeSort.o -c chainMergeSort.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainMergeSort chainMergeSort.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainMergeSort make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainMergeSort' if test -d chainNet ; then cd chainNet && echo chainNet && make ; fi chainNet make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainNet' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainNet.o -c chainNet.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainNet chainNet.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainNet make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainNet' if test -d chainPreNet ; then cd chainPreNet && echo chainPreNet && make ; fi chainPreNet make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainPreNet' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainPreNet.o -c chainPreNet.c chainPreNet.c: In function ‘setupChroms’: chainPreNet.c:74:5: warning: variable ‘chromCount’ set but not used [-Wunused-but-set-variable=] 74 | int chromCount = 0; | ^~~~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainPreNet chainPreNet.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainPreNet make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainPreNet' if test -d chainScore ; then cd chainScore && echo chainScore && make ; fi chainScore make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainScore' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainScore.o -c chainScore.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainScore chainScore.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainScore make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainScore' if test -d chainSort ; then cd chainSort && echo chainSort && make ; fi chainSort make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainSort' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainSort.o -c chainSort.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainSort chainSort.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainSort make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainSort' if test -d chainSplit ; then cd chainSplit && echo chainSplit && make ; fi chainSplit make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainSplit' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainSplit.o -c chainSplit.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainSplit chainSplit.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainSplit make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainSplit' if test -d chainStitchId ; then cd chainStitchId && echo chainStitchId && make ; fi chainStitchId make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainStitchId' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainStitchId.o -c chainStitchId.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainStitchId chainStitchId.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainStitchId make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainStitchId' if test -d chainSwap ; then cd chainSwap && echo chainSwap && make ; fi chainSwap make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainSwap' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainSwap.o -c chainSwap.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainSwap chainSwap.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainSwap make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainSwap' if test -d chainToAxt ; then cd chainToAxt && echo chainToAxt && make ; fi chainToAxt make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainToAxt' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainToAxt.o -c chainToAxt.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainToAxt chainToAxt.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainToAxt make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainToAxt' if test -d chainToPsl ; then cd chainToPsl && echo chainToPsl && make ; fi chainToPsl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainToPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainToPsl.o -c chainToPsl.c chainToPsl.c: In function ‘aliStringToPsl’: chainToPsl.c:48:17: warning: variable ‘tbSize’ set but not used [-Wunused-but-set-variable=] 48 | int qbSize = 0, tbSize = 0; /* sum of block sizes */ | ^~~~~~ chainToPsl.c:48:5: warning: variable ‘qbSize’ set but not used [-Wunused-but-set-variable=] 48 | int qbSize = 0, tbSize = 0; /* sum of block sizes */ | ^~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainToPsl chainToPsl.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainToPsl make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainToPsl' if test -d chainToPslBasic ; then cd chainToPslBasic && echo chainToPslBasic && make ; fi chainToPslBasic make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainToPslBasic' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainToPslBasic.o -c chainToPslBasic.c chainToPslBasic.c: In function ‘chainToPsl’: chainToPslBasic.c:63:5: warning: variable ‘iBlk’ set but not used [-Wunused-but-set-variable=] 63 | int iBlk = 0; | ^~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainToPslBasic chainToPslBasic.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainToPslBasic make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/chainToPslBasic' if test -d lavToAxt ; then cd lavToAxt && echo lavToAxt && make ; fi lavToAxt make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/lavToAxt' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o lavToAxt.o -c lavToAxt.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/lavToAxt lavToAxt.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/lavToAxt make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/lavToAxt' if test -d lavToPsl ; then cd lavToPsl && echo lavToPsl && make ; fi lavToPsl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/lavToPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o lavToPsl.o -c lavToPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/lavToPsl lavToPsl.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/lavToPsl make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/lavToPsl' if test -d mafCoverage ; then cd mafCoverage && echo mafCoverage && make ; fi mafCoverage make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mafCoverage' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafCoverage.o -c mafCoverage.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafCoverage mafCoverage.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafCoverage make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mafCoverage' if test -d mafFetch ; then cd mafFetch && echo mafFetch && make ; fi mafFetch make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mafFetch' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafFetch.o -c mafFetch.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafFetch mafFetch.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafFetch make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mafFetch' if test -d mafRanges ; then cd mafRanges && echo mafRanges && make ; fi mafRanges make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mafRanges' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafRanges.o -c mafRanges.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafRanges mafRanges.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafRanges make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mafRanges' if test -d mafNoAlign ; then cd mafNoAlign && echo mafNoAlign && make ; fi mafNoAlign make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mafNoAlign' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafNoAlign.o -c mafNoAlign.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafNoAlign mafNoAlign.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafNoAlign make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mafNoAlign' if test -d mafToAxt ; then cd mafToAxt && echo mafToAxt && make ; fi mafToAxt make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mafToAxt' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafToAxt.o -c mafToAxt.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafToAxt mafToAxt.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafToAxt make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mafToAxt' if test -d mafToPsl ; then cd mafToPsl && echo mafToPsl && make ; fi mafToPsl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mafToPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafToPsl.o -c mafToPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafToPsl mafToPsl.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafToPsl make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/mafToPsl' if test -d netChainSubset ; then cd netChainSubset && echo netChainSubset && make ; fi netChainSubset make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netChainSubset' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o netChainSubset.o -c netChainSubset.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netChainSubset netChainSubset.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netChainSubset make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netChainSubset' if test -d netClass ; then cd netClass && echo netClass && make ; fi netClass make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netClass' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o netClass.o -c netClass.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netClass netClass.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netClass make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netClass' if test -d netFilter ; then cd netFilter && echo netFilter && make ; fi netFilter make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netFilter' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o netFilter.o -c netFilter.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netFilter netFilter.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netFilter make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netFilter' if test -d netSplit ; then cd netSplit && echo netSplit && make ; fi netSplit make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netSplit' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o netSplit.o -c netSplit.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netSplit netSplit.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netSplit make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netSplit' if test -d netSyntenic ; then cd netSyntenic && echo netSyntenic && make ; fi netSyntenic make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netSyntenic' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o netSyntenic.o -c netSyntenic.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netSyntenic netSyntenic.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netSyntenic make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netSyntenic' if test -d netToAxt ; then cd netToAxt && echo netToAxt && make ; fi netToAxt make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netToAxt' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o netToAxt.o -c netToAxt.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netToAxt netToAxt.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netToAxt make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netToAxt' if test -d netToBed ; then cd netToBed && echo netToBed && make ; fi netToBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netToBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o netToBed.o -c netToBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netToBed netToBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/netToBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/netToBed' if test -d pslMrnaCover ; then cd pslMrnaCover && echo pslMrnaCover && make ; fi pslMrnaCover make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/pslMrnaCover' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o pslMrnaCover.o -c pslMrnaCover.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslMrnaCover pslMrnaCover.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslMrnaCover make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff/pslMrnaCover' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mouseStuff' if test -d near/hgCeOrfToGene ; then cd near/hgCeOrfToGene && echo near/hgCeOrfToGene && make ; fi if test -d near/hgClusterGenes ; then cd near/hgClusterGenes && echo near/hgClusterGenes && make ; fi if test -d near/hgEmblProtLinks ; then cd near/hgEmblProtLinks && echo near/hgEmblProtLinks && make ; fi if test -d near/hgExpDistance ; then cd near/hgExpDistance && echo near/hgExpDistance && make ; fi if test -d near/hgGoAssociation ; then cd near/hgGoAssociation && echo near/hgGoAssociation && make ; fi if test -d near/hgKnownToSuper ; then cd near/hgKnownToSuper && echo near/hgKnownToSuper && make ; fi if test -d near/hgMapToGene ; then cd near/hgMapToGene && echo near/hgMapToGene && make ; fi if test -d near/hgMapViaSwissProt ; then cd near/hgMapViaSwissProt && echo near/hgMapViaSwissProt && make ; fi if test -d near/hgProtIdToGenePred ; then cd near/hgProtIdToGenePred && echo near/hgProtIdToGenePred && make ; fi if test -d near/hgWormLinks ; then cd near/hgWormLinks && echo near/hgWormLinks && make ; fi if test -d near/pepPredToFa ; then cd near/pepPredToFa && echo near/pepPredToFa && make ; fi if test -d near/hgNearTest ; then cd near/hgNearTest && echo near/hgNearTest && make ; fi if test -d near/hgNetDist ; then cd near/hgNetDist && echo near/hgNetDist && make ; fi if test -d near/knownToHprd ; then cd near/knownToHprd && echo near/knownToHprd && make ; fi if test -d nci60 ; then cd nci60 && echo nci60 && make ; fi nci60 make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/nci60' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -Wimplicit -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/findStanAlignments findStanAlignments.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lmariadb -lz -lpthread -lm -lssl -lcrypto true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/findStanAlignments gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -Wimplicit -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/stanToBedAndExpRecs stanToBedAndExpRecs.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lmariadb -lz -lpthread -lm -lssl -lcrypto stanToBedAndExpRecs.c: In function ‘pslToBed’: stanToBedAndExpRecs.c:73:1: warning: ‘strncpy’ output may be truncated copying 2 bytes from a string of length 2 [-Wstringop-truncation] 73 | strncpy(bed->strand, psl->strand, sizeof(bed->strand)); | ^ true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/stanToBedAndExpRecs make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/nci60' if test -d orthoMap ; then cd orthoMap && echo orthoMap && make ; fi orthoMap make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/orthoMap' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o orthoEval.o -c orthoEval.c gcc -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mgcFastaForBed mgcFastaForBed.c orthoEval.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agxToIntronBeds agxToIntronBeds.c orthoEval.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedToFrames bedToFrames.c orthoEval.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/orthoMap orthoMap.c orthoEval.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/orthoEvaluate orthoEvaluate.c orthoEval.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -I../inc -I../../inc -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/orthoPickIntron orthoPickIntron.c orthoEval.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/orthoMap' if test -d patCount ; then cd patCount && echo patCount && make ; fi patCount make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/patCount' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o patCount.o -c patCount.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/patCount patCount.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/patCount make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/patCount' if test -d perf ; then cd perf && echo perf && make ; fi perf make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/perf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hgTracksRandom.o -c hgTracksRandom.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgTracksRandom hgTracksRandom.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lmariadb -lz -lpthread -lm -lssl -lcrypto make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/perf' if test -d pslCoverage ; then cd pslCoverage && echo pslCoverage && make ; fi pslCoverage make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslCoverage' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslCoverage.o -c pslCoverage.c pslCoverage.c: In function ‘doOneAcc’: pslCoverage.c:132:5: warning: variable ‘goodAliCount’ set but not used [-Wunused-but-set-variable=] 132 | int goodAliCount = 0; | ^~~~~~~~~~~~ pslCoverage.c: In function ‘summarizeProbeList’: pslCoverage.c:251:5: warning: variable ‘totalBases’ set but not used [-Wunused-but-set-variable=] 251 | int totalBases = 0; | ^~~~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslCoverage pslCoverage.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslCoverage make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslCoverage' if test -d pslDiff ; then cd pslDiff && echo pslDiff && make ; fi pslDiff make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslDiff' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslSets.o -c pslSets.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslDiff.o -c pslDiff.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslDiff pslSets.o pslDiff.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslDiff make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslDiff' if test -d pslFilterPrimers ; then cd pslFilterPrimers && echo pslFilterPrimers && make ; fi pslFilterPrimers make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslFilterPrimers' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslFilterPrimers.o -c pslFilterPrimers.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslFilterPrimers pslFilterPrimers.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslFilterPrimers make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslFilterPrimers' if test -d pslGlue ; then cd pslGlue && echo pslGlue && make ; fi pslGlue make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslGlue' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslGlue.o -c pslGlue.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslGlue pslGlue.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslGlue make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslGlue' if test -d pslHitPercent ; then cd pslHitPercent && echo pslHitPercent && make ; fi pslHitPercent make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslHitPercent' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslHitPercent.o -c pslHitPercent.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslHitPercent pslHitPercent.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslHitPercent make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslHitPercent' if test -d pslIntronsOnly ; then cd pslIntronsOnly && echo pslIntronsOnly && make ; fi pslIntronsOnly make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslIntronsOnly' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslIntronsOnly.o -c pslIntronsOnly.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslIntronsOnly pslIntronsOnly.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslIntronsOnly make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslIntronsOnly' if test -d pslQuickFilter ; then cd pslQuickFilter && echo pslQuickFilter && make ; fi pslQuickFilter make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslQuickFilter' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslQuickFilter.o -c pslQuickFilter.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslQuickFilter pslQuickFilter.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslQuickFilter make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslQuickFilter' if test -d pslSimp ; then cd pslSimp && echo pslSimp && make ; fi pslSimp make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslSimp' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslSimp.o -c pslSimp.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSimp pslSimp.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSimp make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslSimp' if test -d pslSortAcc ; then cd pslSortAcc && echo pslSortAcc && make ; fi pslSortAcc make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslSortAcc' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslSortAcc.o -c pslSortAcc.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSortAcc pslSortAcc.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSortAcc make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslSortAcc' if test -d pslSplitOnTarget ; then cd pslSplitOnTarget && echo pslSplitOnTarget && make ; fi pslSplitOnTarget make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslSplitOnTarget' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslSplitOnTarget.o -c pslSplitOnTarget.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSplitOnTarget pslSplitOnTarget.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSplitOnTarget make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslSplitOnTarget' if test -d pslUnpile ; then cd pslUnpile && echo pslUnpile && make ; fi pslUnpile make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslUnpile' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslUnpile.o -c pslUnpile.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslUnpile pslUnpile.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslUnpile make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslUnpile' if test -d qa ; then cd qa && echo qa && make ; fi qa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/qa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/apacheMonitor apacheMonitor.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkCardinality checkCardinality.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/countNib countNib.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dumpNib dumpNib.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gbSeqCheck gbSeqCheck.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/reviewIndexes reviewIndexes.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/seqCheck seqCheck.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/getChroms getChroms.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkChain checkChain.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/testSearch testSearch.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm In function ‘hgPositionsFind’, inlined from ‘searchAndCompare’ at testSearch.c:262:15: ../lib/hgFind.c:3930:23: warning: ‘start’ may be used uninitialized [-Wmaybe-uninitialized] 3930 | start = start + relStart; | ^ ../lib/hgFind.c: In function ‘searchAndCompare’: ../lib/hgFind.c:3923:9: note: ‘start’ was declared here 3923 | int start, end; | ^ In function ‘hgPositionsFind’, inlined from ‘searchAndCompare’ at testSearch.c:262:15: ../lib/hgFind.c:3931:12: warning: ‘end’ may be used uninitialized [-Wmaybe-uninitialized] 3931 | if (end > chromSize) | ^ ../lib/hgFind.c: In function ‘searchAndCompare’: ../lib/hgFind.c:3923:16: note: ‘end’ was declared here 3923 | int start, end; | ^ In function ‘hgPositionsFind’, inlined from ‘searchAndCompare’ at testSearch.c:262:15: ../lib/hgFind.c:3936:5: warning: ‘chrom’ may be used uninitialized [-Wmaybe-uninitialized] 3936 | singlePos(hgp, "Chromosome Range", NULL, "chromInfo", originalTerm, | ^ ../lib/hgFind.c: In function ‘searchAndCompare’: ../lib/hgFind.c:3922:11: note: ‘chrom’ was declared here 3922 | char *chrom; | ^ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/timePosTable timePosTable.c ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/qa' if test -d ratStuff ; then cd ratStuff && echo ratStuff && make ; fi ratStuff make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff' cd stageMultiz && echo stageMultiz && make stageMultiz make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/stageMultiz' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o stageMultiz.o -c stageMultiz.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/stageMultiz stageMultiz.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/stageMultiz make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/stageMultiz' cd mafAddIRows && echo mafAddIRows && make mafAddIRows make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafAddIRows' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafAddIRows.o -c mafAddIRows.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafAddIRows mafAddIRows.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafAddIRows make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafAddIRows' cd mafAddQRows && echo mafAddQRows && make mafAddQRows make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafAddQRows' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafAddQRows.o -c mafAddQRows.c mafAddQRows.c: In function ‘loadQualityData.isra.0’: mafAddQRows.c:230:1: warning: ‘strncpy’ specified bound 1024 equals destination size [-Wstringop-truncation] 230 | strncpy(buffer, mc->src, sizeof(buffer)); | ^ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafAddQRows mafAddQRows.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafAddQRows make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafAddQRows' cd mafFilter && echo mafFilter && make mafFilter make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafFilter' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafFilter.o -c mafFilter.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafFilter mafFilter.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafFilter make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafFilter' cd mafFrag && echo mafFrag && make mafFrag make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafFrag' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafFrag.o -c mafFrag.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafFrag mafFrag.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafFrag make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafFrag' cd mafFrags && echo mafFrags && make mafFrags make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafFrags' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafFrags.o -c mafFrags.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafFrags mafFrags.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafFrags make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafFrags' cd mafGene && echo mafGene && make mafGene make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafGene' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafGene.o -c mafGene.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafGene mafGene.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafGene make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafGene' cd mafMeFirst && echo mafMeFirst && make mafMeFirst make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafMeFirst' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafMeFirst.o -c mafMeFirst.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafMeFirst mafMeFirst.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafMeFirst make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafMeFirst' cd mafSpeciesList && echo mafSpeciesList && make mafSpeciesList make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafSpeciesList' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafSpeciesList.o -c mafSpeciesList.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafSpeciesList mafSpeciesList.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafSpeciesList make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafSpeciesList' cd mafSpeciesSubset && echo mafSpeciesSubset && make mafSpeciesSubset make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafSpeciesSubset' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafSpeciesSubset.o -c mafSpeciesSubset.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafSpeciesSubset mafSpeciesSubset.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafSpeciesSubset make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafSpeciesSubset' cd mafSplit && echo mafSplit && make mafSplit make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafSplit' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafSplit.o -c mafSplit.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafSplit mafSplit.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafSplit make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafSplit' cd mafSplitPos && echo mafSplitPos && make mafSplitPos make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafSplitPos' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafSplitPos.o -c mafSplitPos.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafSplitPos mafSplitPos.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafSplitPos make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafSplitPos' cd mafsInRegion && echo mafsInRegion && make mafsInRegion make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafsInRegion' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafsInRegion.o -c mafsInRegion.c In file included from mafsInRegion.c:6: mafsInRegion.c: In function ‘extractMafs’: ../../../inc/common.h:801:31: warning: ‘strcmp’ reading 1 or more bytes from a region of size 0 [-Wstringop-overread] 801 | #define differentString(a,b) (strcmp(a,b)) | ~^~~~~~~~~~~~ cc1: note: source object is likely at address zero gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafsInRegion mafsInRegion.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafsInRegion make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafsInRegion' cd mafOrder && echo mafOrder && make mafOrder make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafOrder' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafOrder.o -c mafOrder.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafOrder mafOrder.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafOrder make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafOrder' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff' if test -d relPairs ; then cd relPairs && echo relPairs && make ; fi relPairs make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/relPairs' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o relPairs.o -c relPairs.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/relPairs relPairs.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/relPairs make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/relPairs' if test -d recycleDb ; then cd recycleDb && echo recycleDb && make ; fi recycleDb make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/recycleDb' cd bedUp && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/recycleDb/bedUp' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bedUp.o -c bedUp.c bedUp.c: In function ‘unpackPslName’: bedUp.c:60:1: warning: ‘strncpy’ specified bound 128 equals destination size [-Wstringop-truncation] 60 | strncpy(buf, pslName, sizeof(buf)); | ^ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedUp bedUp.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedUp make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/recycleDb/bedUp' cd bedDown && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/recycleDb/bedDown' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bedDown.o -c bedDown.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedDown bedDown.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedDown make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/recycleDb/bedDown' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/recycleDb' if test -d rnaStructure ; then cd rnaStructure && echo rnaStructure && make ; fi rnaStructure make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/rnaStructure' ( cd hgLoadRnaFold && echo hgLoadRnaFold && make ) hgLoadRnaFold make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/rnaStructure/hgLoadRnaFold' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgLoadRnaFold.o -c hgLoadRnaFold.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadRnaFold hgLoadRnaFold.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgLoadRnaFold make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/rnaStructure/hgLoadRnaFold' ( cd rnaFoldBig && echo rnaFoldBig && make ) rnaFoldBig make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/rnaStructure/rnaFoldBig' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o rnaFoldBig.o -c rnaFoldBig.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/rnaFoldBig rnaFoldBig.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/rnaFoldBig make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/rnaStructure/rnaFoldBig' ( cd utrFa && echo utrFa && make ) utrFa make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/rnaStructure/utrFa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o utrFa.o -c utrFa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/utrFa utrFa.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/utrFa make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/rnaStructure/utrFa' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/rnaStructure' if test -d sage ; then cd sage && echo sage && make ; fi sage make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/sage' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o addAveMedScoreToPsls.o -c addAveMedScoreToPsls.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o createSageSummary.o -c createSageSummary.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o addAveMedScoreToPsls addAveMedScoreToPsls.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lmariadb -lz -lpthread -lm -lssl -lcrypto gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o createSageSummary createSageSummary.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lmariadb -lz -lpthread -lm -lssl -lcrypto rm -f /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/addAveMedScoreToPsls mv addAveMedScoreToPsls /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ rm -f /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/createSageSummary mv createSageSummary /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/sage' if test -d scanRa ; then cd scanRa && echo scanRa && make ; fi scanRa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/scanRa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o scanRa.o -c scanRa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/scanRa scanRa.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/scanRa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/scanRa' if test -d semiNorm ; then cd semiNorm && echo semiNorm && make ; fi semiNorm make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/semiNorm' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o semiNorm.o -c semiNorm.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/semiNorm semiNorm.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/semiNorm make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/semiNorm' if test -d sim4big ; then cd sim4big && echo sim4big && make ; fi sim4big make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/sim4big' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o sim4big.o -c sim4big.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/sim4big sim4big.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/sim4big make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/sim4big' if test -d snpException ; then cd snpException && echo snpException && make ; fi snpException make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snpException' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o snpException.o -c snpException.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/snpException snpException.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/snpException make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snpException' if test -d snp ; then cd snp && echo snp && make ; fi snp make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snp' make -C snpLoad make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snp/snpLoad' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o snpNcbiToUcsc.o -c snpNcbiToUcsc.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/snpNcbiToUcsc snpNcbiToUcsc.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/snpNcbiToUcsc gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hapmapPhaseIIISummary.o -c hapmapPhaseIIISummary.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hapmapPhaseIIISummary hapmapPhaseIIISummary.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hapmapPhaseIIISummary make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snp/snpLoad' make -C snpMask make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snp/snpMask' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o snpMaskSingle.o -c snpMaskSingle.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/snpMaskSingle snpMaskSingle.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/snpMaskSingle gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o snpMaskAddInsertions.o -c snpMaskAddInsertions.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/snpMaskAddInsertions snpMaskAddInsertions.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/snpMaskAddInsertions gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o snpMaskCutDeletions.o -c snpMaskCutDeletions.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/snpMaskCutDeletions snpMaskCutDeletions.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/snpMaskCutDeletions make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snp/snpMask' make -C snpValid make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snp/snpValid' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o snpValid.o -c snpValid.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/snpValid snpValid.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/snpValid make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snp/snpValid' make -C dbSnpJsonToTab make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snp/dbSnpJsonToTab' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o dbSnpJsonToTab.o -c dbSnpJsonToTab.c dbSnpJsonToTab.c: In function ‘parseSpdis’: dbSnpJsonToTab.c:217:45: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 217 | errAbort("Invalid deleted_sequence '%s' in spdi for %s", del, name); | ^~ dbSnpJsonToTab.c:217:45: warning: ‘%s’ directive argument is null [-Wformat-overflow=] gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dbSnpJsonToTab dbSnpJsonToTab.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dbSnpJsonToTab make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snp/dbSnpJsonToTab' make -C checkBigDbSnp make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snp/checkBigDbSnp' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o checkBigDbSnp.o -c checkBigDbSnp.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkBigDbSnp checkBigDbSnp.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkBigDbSnp make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snp/checkBigDbSnp' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/snp' if test -d spideyToPsl ; then cd spideyToPsl && echo spideyToPsl && make ; fi spideyToPsl make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/spideyToPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o spideyToPsl.o -c spideyToPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/spideyToPsl spideyToPsl.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/spideyToPsl make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/spideyToPsl' if test -d splitFa ; then cd splitFa && echo splitFa && make ; fi splitFa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/splitFa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o splitFa.o -c splitFa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/splitFa splitFa.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/splitFa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/splitFa' if test -d splitFaIntoContigs ; then cd splitFaIntoContigs && echo splitFaIntoContigs && make ; fi splitFaIntoContigs make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/splitFaIntoContigs' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o splitFaIntoContigs.o -c splitFaIntoContigs.c splitFaIntoContigs.c: In function ‘splitFaIntoContigs’: splitFaIntoContigs.c:273:25: warning: ‘.fa’ directive writing 3 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 273 | sprintf(filename, "%s/%s.fa", destDir, chromName); | ^~~ In file included from /usr/include/stdio.h:974, from ../../inc/common.h:30, from splitFaIntoContigs.c:9: In function ‘sprintf’, inlined from ‘writeChromFaFile’ at splitFaIntoContigs.c:273:1, inlined from ‘splitFaIntoContigs’ at splitFaIntoContigs.c:514:5: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output 5 or more bytes (assuming 1028) into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ splitFaIntoContigs.c: In function ‘splitFaIntoContigs’: splitFaIntoContigs.c:240:25: warning: ‘.agp’ directive writing 4 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 240 | sprintf(filename, "%s/%s.agp", destDir, chromName); | ^~~~ In function ‘sprintf’, inlined from ‘writeChromAgpFile’ at splitFaIntoContigs.c:240:1, inlined from ‘splitFaIntoContigs’ at splitFaIntoContigs.c:515:5: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output 6 or more bytes (assuming 1029) into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/splitFaIntoContigs splitFaIntoContigs.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/splitFaIntoContigs make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/splitFaIntoContigs' if test -d test ; then cd test && echo test && make ; fi test make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/test' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o test.o -c test.c gcc -O -g -o test test.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/test' if test -d txCds ; then cd txCds && echo txCds && make ; fi txCds make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds' ( cd txCdsBadBed && echo txCdsBadBed && make ) txCdsBadBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsBadBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsBadBed.o -c txCdsBadBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsBadBed txCdsBadBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsBadBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsBadBed' ( cd txCdsCluster && echo txCdsCluster && make ) txCdsCluster make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsCluster' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsCluster.o -c txCdsCluster.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsCluster txCdsCluster.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsCluster make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsCluster' ( cd txCdsEvFromBed && echo txCdsEvFromBed && make ) txCdsEvFromBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsEvFromBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsEvFromBed.o -c txCdsEvFromBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsEvFromBed txCdsEvFromBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsEvFromBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsEvFromBed' ( cd txCdsEvFromBorf && echo txCdsEvFromBorf && make ) txCdsEvFromBorf make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsEvFromBorf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsEvFromBorf.o -c txCdsEvFromBorf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsEvFromBorf txCdsEvFromBorf.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsEvFromBorf make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsEvFromBorf' ( cd txCdsEvFromProtein && echo txCdsEvFromProtein && make ) txCdsEvFromProtein make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsEvFromProtein' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsEvFromProtein.o -c txCdsEvFromProtein.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsEvFromProtein txCdsEvFromProtein.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsEvFromProtein make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsEvFromProtein' ( cd txCdsEvFromRna && echo txCdsEvFromRna && make ) txCdsEvFromRna make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsEvFromRna' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsEvFromRna.o -c txCdsEvFromRna.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsEvFromRna txCdsEvFromRna.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsEvFromRna make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsEvFromRna' ( cd txCdsGoodBed && echo txCdsGoodBed && make ) txCdsGoodBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsGoodBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsGoodBed.o -c txCdsGoodBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsGoodBed txCdsGoodBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsGoodBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsGoodBed' ( cd txCdsOrfInfo && echo txCdsOrfInfo && make ) txCdsOrfInfo make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsOrfInfo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsOrfInfo.o -c txCdsOrfInfo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsOrfInfo txCdsOrfInfo.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsOrfInfo make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsOrfInfo' ( cd txCdsOrtho && echo txCdsOrtho && make ) txCdsOrtho make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsOrtho' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsOrtho.o -c txCdsOrtho.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsOrtho txCdsOrtho.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsOrtho make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsOrtho' ( cd txCdsPick && echo txCdsPick && make ) txCdsPick make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsPick' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsPick.o -c txCdsPick.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsPick txCdsPick.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsPick make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsPick' ( cd txCdsPredict && echo txCdsPredict && make ) txCdsPredict make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsPredict' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsPredict.o -c txCdsPredict.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsPredict txCdsPredict.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsPredict make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsPredict' ( cd txCdsRaExceptions && echo txCdsRaExceptions && make ) txCdsRaExceptions make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsRaExceptions' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsRaExceptions.o -c txCdsRaExceptions.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsRaExceptions txCdsRaExceptions.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsRaExceptions make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsRaExceptions' ( cd txCdsRefBestEvOnly && echo txCdsRefBestEvOnly && make ) txCdsRefBestEvOnly make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsRefBestEvOnly' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsRefBestEvOnly.o -c txCdsRefBestEvOnly.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsRefBestEvOnly txCdsRefBestEvOnly.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsRefBestEvOnly make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsRefBestEvOnly' ( cd txCdsRepick && echo txCdsRepick && make ) txCdsRepick make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsRepick' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsRepick.o -c txCdsRepick.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsRepick txCdsRepick.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsRepick make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsRepick' ( cd txCdsSuspect && echo txCdsSuspect && make ) txCdsSuspect make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsSuspect' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsSuspect.o -c txCdsSuspect.c txCdsSuspect.c: In function ‘txCdsSuspect’: txCdsSuspect.c:203:5: warning: variable ‘txWithCdsCount’ set but not used [-Wunused-but-set-variable=] 203 | int txWithCdsCount = 0; | ^~~~~~~~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsSuspect txCdsSuspect.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsSuspect make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsSuspect' ( cd txCdsSvmInput && echo txCdsSvmInput && make ) txCdsSvmInput make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsSvmInput' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsSvmInput.o -c txCdsSvmInput.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsSvmInput txCdsSvmInput.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsSvmInput make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsSvmInput' ( cd txCdsToGene && echo txCdsToGene && make ) txCdsToGene make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsToGene' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsToGene.o -c txCdsToGene.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsToGene txCdsToGene.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsToGene make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsToGene' ( cd txCdsWeed && echo txCdsWeed && make ) txCdsWeed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsWeed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txCdsWeed.o -c txCdsWeed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsWeed txCdsWeed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txCdsWeed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txCdsWeed' ( cd txInfoAssemble && echo txInfoAssemble && make ) txInfoAssemble make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txInfoAssemble' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txInfoAssemble.o -c txInfoAssemble.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txInfoAssemble txInfoAssemble.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txInfoAssemble make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds/txInfoAssemble' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txCds' if test -d txGene ; then cd txGene && echo txGene && make ; fi txGene make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene' make -C txGenbankData make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGenbankData' cp -p txGenbankData /builddir/bin/scripts/txGenbankData.tmp mv -f /builddir/bin/scripts/txGenbankData.tmp /builddir/bin/scripts/txGenbankData make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGenbankData' make -C txGeneAccession make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneAccession' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txGeneAccession.o -c txGeneAccession.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneAccession txGeneAccession.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneAccession make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneAccession' make -C txGeneAlias make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneAlias' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txGeneAlias.o -c txGeneAlias.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneAlias txGeneAlias.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneAlias make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneAlias' make -C txGeneAltProt make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneAltProt' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txGeneAltProt.o -c txGeneAltProt.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneAltProt txGeneAltProt.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneAltProt make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneAltProt' make -C txGeneCanonical make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneCanonical' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txGeneCanonical.o -c txGeneCanonical.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneCanonical txGeneCanonical.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneCanonical make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneCanonical' make -C txGeneCdsMap make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneCdsMap' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txGeneCdsMap.o -c txGeneCdsMap.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneCdsMap txGeneCdsMap.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneCdsMap make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneCdsMap' make -C txGeneColor make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneColor' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txGeneColor.o -c txGeneColor.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneColor txGeneColor.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneColor make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneColor' make -C txGeneExplainUpdate1 make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneExplainUpdate1' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txGeneExplainUpdate1.o -c txGeneExplainUpdate1.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneExplainUpdate1 txGeneExplainUpdate1.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneExplainUpdate1 make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneExplainUpdate1' make -C txGeneFromBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneFromBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txGeneFromBed.o -c txGeneFromBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneFromBed txGeneFromBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneFromBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneFromBed' make -C txGeneProtAndRna make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneProtAndRna' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txGeneProtAndRna.o -c txGeneProtAndRna.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneProtAndRna txGeneProtAndRna.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneProtAndRna make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneProtAndRna' make -C txGeneSeparateNoncoding make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneSeparateNoncoding' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txGeneSeparateNoncoding.o -c txGeneSeparateNoncoding.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneSeparateNoncoding txGeneSeparateNoncoding.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneSeparateNoncoding make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneSeparateNoncoding' make -C txGeneValidation make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneValidation' mkdir -p /builddir/bin/scripts cp checkRandomLinesExist.py compareModifiedFileSizes.csh compareTableSizesFromDbSnoop.py /builddir/bin/scripts/ make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneValidation' make -C txGeneXref make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneXref' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txGeneXref.o -c txGeneXref.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneXref txGeneXref.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txGeneXref make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene/txGeneXref' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGene' if test -d txGraph ; then cd txGraph && echo txGraph && make ; fi txGraph make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph' make -C agxToTxg make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/agxToTxg' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o agxToTxg.o -c agxToTxg.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agxToTxg agxToTxg.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/agxToTxg make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/agxToTxg' make -C bedToTxEdges make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/bedToTxEdges' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bedToTxEdges.o -c bedToTxEdges.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedToTxEdges bedToTxEdges.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedToTxEdges make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/bedToTxEdges' make -C txAbFragFind make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txAbFragFind' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txAbFragFind.o -c txAbFragFind.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txAbFragFind txAbFragFind.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txAbFragFind make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txAbFragFind' make -C txBedToGraph make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txBedToGraph' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txBedToGraph.o -c txBedToGraph.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o makeGraph.o -c makeGraph.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txBedToGraph txBedToGraph.o makeGraph.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txBedToGraph make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txBedToGraph' make -C txOrtho make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txOrtho' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txOrtho.o -c txOrtho.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txOrtho txOrtho.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txOrtho make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txOrtho' make -C txPslFilter make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txPslFilter' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txPslFilter.o -c txPslFilter.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txPslFilter txPslFilter.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txPslFilter make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txPslFilter' make -C txPslToBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txPslToBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txPslToBed.o -c txPslToBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txPslToBed txPslToBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txPslToBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txPslToBed' make -C txReadRa make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txReadRa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txReadRa.o -c txReadRa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txReadRa txReadRa.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txReadRa make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txReadRa' make -C txWalk make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txWalk' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txWalk.o -c txWalk.c txWalk.c: In function ‘makeTrackerList’: txWalk.c:151:5: warning: variable ‘i’ set but not used [-Wunused-but-set-variable=] 151 | int i; | ^ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txWalk txWalk.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txWalk make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txWalk' make -C txgAddEvidence make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txgAddEvidence' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txgAddEvidence.o -c txgAddEvidence.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txgAddEvidence txgAddEvidence.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txgAddEvidence make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txgAddEvidence' make -C txgAnalyze make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txgAnalyze' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txgAnalyze.o -c txgAnalyze.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txgAnalyze txgAnalyze.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txgAnalyze make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txgAnalyze' make -C txgGoodEdges make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txgGoodEdges' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txgGoodEdges.o -c txgGoodEdges.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txgGoodEdges txgGoodEdges.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txgGoodEdges make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txgGoodEdges' make -C txgToAgx make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txgToAgx' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txgToAgx.o -c txgToAgx.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txgToAgx txgToAgx.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txgToAgx make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txgToAgx' make -C txgToXml make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txgToXml' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txgToXml.o -c txgToXml.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txgToXml txgToXml.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txgToXml make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txgToXml' make -C txgTrim make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txgTrim' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o txgTrim.o -c txgTrim.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txgTrim txgTrim.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/txgTrim make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph/txgTrim' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/txGraph' if test -d utils ; then cd utils && echo utils && make ; fi utils make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils' if test -d refreshNamedSessionCustomTracks ; then cd refreshNamedSessionCustomTracks && echo refreshNamedSessionCustomTracks && make ; fi refreshNamedSessionCustomTracks make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/refreshNamedSessionCustomTracks' gcc -DCGI_BIN=\"/usr/local/apache/cgi-bin\" -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o refreshNamedSessionCustomTracks.o -c refreshNamedSessionCustomTracks.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/refreshNamedSessionCustomTracks refreshNamedSessionCustomTracks.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/refreshNamedSessionCustomTracks make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/refreshNamedSessionCustomTracks' if test -d automation ; then cd automation && echo automation && make ; fi automation make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/automation' mkdir -p /builddir/bin/scripts rm -f /builddir/bin/scripts/Encode.pm echo cp -p Encode.pm /builddir/bin/scripts cp -p Encode.pm /builddir/bin/scripts cp -p Encode.pm /builddir/bin/scripts chmod 664 /builddir/bin/scripts/Encode.pm rm -f /builddir/bin/scripts/HgAutomate.pm echo cp -p HgAutomate.pm /builddir/bin/scripts cp -p HgAutomate.pm /builddir/bin/scripts cp -p HgAutomate.pm /builddir/bin/scripts chmod 664 /builddir/bin/scripts/HgAutomate.pm rm -f /builddir/bin/scripts/HgDb.pm echo cp -p HgDb.pm /builddir/bin/scripts cp -p HgDb.pm /builddir/bin/scripts cp -p HgDb.pm /builddir/bin/scripts chmod 664 /builddir/bin/scripts/HgDb.pm rm -f /builddir/bin/scripts/RAFile.pm echo cp -p RAFile.pm /builddir/bin/scripts cp -p RAFile.pm /builddir/bin/scripts cp -p RAFile.pm /builddir/bin/scripts chmod 664 /builddir/bin/scripts/RAFile.pm rm -f /builddir/bin/scripts/SafePipe.pm echo cp -p SafePipe.pm /builddir/bin/scripts cp -p SafePipe.pm /builddir/bin/scripts cp -p SafePipe.pm /builddir/bin/scripts chmod 664 /builddir/bin/scripts/SafePipe.pm rm -f /builddir/bin/scripts/EnsGeneAutomate.pm echo cp -p EnsGeneAutomate.pm /builddir/bin/scripts cp -p EnsGeneAutomate.pm /builddir/bin/scripts cp -p EnsGeneAutomate.pm /builddir/bin/scripts chmod 664 /builddir/bin/scripts/EnsGeneAutomate.pm rm -f /builddir/bin/scripts/HgRemoteScript.pm echo cp -p HgRemoteScript.pm /builddir/bin/scripts cp -p HgRemoteScript.pm /builddir/bin/scripts cp -p HgRemoteScript.pm /builddir/bin/scripts chmod 664 /builddir/bin/scripts/HgRemoteScript.pm rm -f /builddir/bin/scripts/HgStepManager.pm echo cp -p HgStepManager.pm /builddir/bin/scripts cp -p HgStepManager.pm /builddir/bin/scripts cp -p HgStepManager.pm /builddir/bin/scripts chmod 664 /builddir/bin/scripts/HgStepManager.pm rm -f /builddir/bin/scripts/AsmHub.pm echo cp -p AsmHub.pm /builddir/bin/scripts cp -p AsmHub.pm /builddir/bin/scripts cp -p AsmHub.pm /builddir/bin/scripts chmod 664 /builddir/bin/scripts/AsmHub.pm rm -f /builddir/bin/scripts/addQuickLift.py echo cp -p addQuickLift.py /builddir/bin/scripts cp -p addQuickLift.py /builddir/bin/scripts cp -p addQuickLift.py /builddir/bin/scripts chmod +x /builddir/bin/scripts/addQuickLift.py rm -f /builddir/bin/scripts/asmHubAllGaps.pl echo cp -p asmHubAllGaps.pl /builddir/bin/scripts cp -p asmHubAllGaps.pl /builddir/bin/scripts cp -p asmHubAllGaps.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubAllGaps.pl rm -f /builddir/bin/scripts/asmHubAssembly.pl echo cp -p asmHubAssembly.pl /builddir/bin/scripts cp -p asmHubAssembly.pl /builddir/bin/scripts cp -p asmHubAssembly.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubAssembly.pl rm -f /builddir/bin/scripts/asmHubAugustusGene.pl echo cp -p asmHubAugustusGene.pl /builddir/bin/scripts cp -p asmHubAugustusGene.pl /builddir/bin/scripts cp -p asmHubAugustusGene.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubAugustusGene.pl rm -f /builddir/bin/scripts/asmHubChainNetTrackDb.pl echo cp -p asmHubChainNetTrackDb.pl /builddir/bin/scripts cp -p asmHubChainNetTrackDb.pl /builddir/bin/scripts cp -p asmHubChainNetTrackDb.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubChainNetTrackDb.pl rm -f /builddir/bin/scripts/asmHubCpG.pl echo cp -p asmHubCpG.pl /builddir/bin/scripts cp -p asmHubCpG.pl /builddir/bin/scripts cp -p asmHubCpG.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubCpG.pl rm -f /builddir/bin/scripts/asmHubEnsGene.pl echo cp -p asmHubEnsGene.pl /builddir/bin/scripts cp -p asmHubEnsGene.pl /builddir/bin/scripts cp -p asmHubEnsGene.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubEnsGene.pl rm -f /builddir/bin/scripts/asmHubGap.pl echo cp -p asmHubGap.pl /builddir/bin/scripts cp -p asmHubGap.pl /builddir/bin/scripts cp -p asmHubGap.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubGap.pl rm -f /builddir/bin/scripts/asmHubGatewayPage.pl echo cp -p asmHubGatewayPage.pl /builddir/bin/scripts cp -p asmHubGatewayPage.pl /builddir/bin/scripts cp -p asmHubGatewayPage.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubGatewayPage.pl rm -f /builddir/bin/scripts/asmHubGc5Percent.pl echo cp -p asmHubGc5Percent.pl /builddir/bin/scripts cp -p asmHubGc5Percent.pl /builddir/bin/scripts cp -p asmHubGc5Percent.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubGc5Percent.pl rm -f /builddir/bin/scripts/asmHubHtml.pl echo cp -p asmHubHtml.pl /builddir/bin/scripts cp -p asmHubHtml.pl /builddir/bin/scripts cp -p asmHubHtml.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubHtml.pl rm -f /builddir/bin/scripts/asmHubRepeatMasker.sh echo cp -p asmHubRepeatMasker.sh /builddir/bin/scripts cp -p asmHubRepeatMasker.sh /builddir/bin/scripts cp -p asmHubRepeatMasker.sh /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubRepeatMasker.sh rm -f /builddir/bin/scripts/asmHubRmsk.pl echo cp -p asmHubRmsk.pl /builddir/bin/scripts cp -p asmHubRmsk.pl /builddir/bin/scripts cp -p asmHubRmsk.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubRmsk.pl rm -f /builddir/bin/scripts/asmHubRmskJoinAlign.pl echo cp -p asmHubRmskJoinAlign.pl /builddir/bin/scripts cp -p asmHubRmskJoinAlign.pl /builddir/bin/scripts cp -p asmHubRmskJoinAlign.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubRmskJoinAlign.pl rm -f /builddir/bin/scripts/asmHubSimpleRepeat.pl echo cp -p asmHubSimpleRepeat.pl /builddir/bin/scripts cp -p asmHubSimpleRepeat.pl /builddir/bin/scripts cp -p asmHubSimpleRepeat.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubSimpleRepeat.pl rm -f /builddir/bin/scripts/asmHubTrackDb.sh echo cp -p asmHubTrackDb.sh /builddir/bin/scripts cp -p asmHubTrackDb.sh /builddir/bin/scripts cp -p asmHubTrackDb.sh /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubTrackDb.sh rm -f /builddir/bin/scripts/asmHubWindowMasker.pl echo cp -p asmHubWindowMasker.pl /builddir/bin/scripts cp -p asmHubWindowMasker.pl /builddir/bin/scripts cp -p asmHubWindowMasker.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/asmHubWindowMasker.pl rm -f /builddir/bin/scripts/blastz-make-joblist echo cp -p blastz-make-joblist /builddir/bin/scripts cp -p blastz-make-joblist /builddir/bin/scripts cp -p blastz-make-joblist /builddir/bin/scripts chmod +x /builddir/bin/scripts/blastz-make-joblist rm -f /builddir/bin/scripts/blastz-normalizeLav echo cp -p blastz-normalizeLav /builddir/bin/scripts cp -p blastz-normalizeLav /builddir/bin/scripts cp -p blastz-normalizeLav /builddir/bin/scripts chmod +x /builddir/bin/scripts/blastz-normalizeLav rm -f /builddir/bin/scripts/blastz-run-ucsc echo cp -p blastz-run-ucsc /builddir/bin/scripts cp -p blastz-run-ucsc /builddir/bin/scripts cp -p blastz-run-ucsc /builddir/bin/scripts chmod +x /builddir/bin/scripts/blastz-run-ucsc rm -f /builddir/bin/scripts/doAssemblyHub.pl echo cp -p doAssemblyHub.pl /builddir/bin/scripts cp -p doAssemblyHub.pl /builddir/bin/scripts cp -p doAssemblyHub.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doAssemblyHub.pl rm -f /builddir/bin/scripts/doAugustus.pl echo cp -p doAugustus.pl /builddir/bin/scripts cp -p doAugustus.pl /builddir/bin/scripts cp -p doAugustus.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doAugustus.pl rm -f /builddir/bin/scripts/doBlastzChainNet.pl echo cp -p doBlastzChainNet.pl /builddir/bin/scripts cp -p doBlastzChainNet.pl /builddir/bin/scripts cp -p doBlastzChainNet.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doBlastzChainNet.pl rm -f /builddir/bin/scripts/doCpgIslands.pl echo cp -p doCpgIslands.pl /builddir/bin/scripts cp -p doCpgIslands.pl /builddir/bin/scripts cp -p doCpgIslands.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doCpgIslands.pl rm -f /builddir/bin/scripts/doEnsGeneUpdate.pl echo cp -p doEnsGeneUpdate.pl /builddir/bin/scripts cp -p doEnsGeneUpdate.pl /builddir/bin/scripts cp -p doEnsGeneUpdate.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doEnsGeneUpdate.pl rm -f /builddir/bin/scripts/doGenscan.pl echo cp -p doGenscan.pl /builddir/bin/scripts cp -p doGenscan.pl /builddir/bin/scripts cp -p doGenscan.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doGenscan.pl rm -f /builddir/bin/scripts/doHgNearBlastp.pl echo cp -p doHgNearBlastp.pl /builddir/bin/scripts cp -p doHgNearBlastp.pl /builddir/bin/scripts cp -p doHgNearBlastp.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doHgNearBlastp.pl rm -f /builddir/bin/scripts/doIdKeys.pl echo cp -p doIdKeys.pl /builddir/bin/scripts cp -p doIdKeys.pl /builddir/bin/scripts cp -p doIdKeys.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doIdKeys.pl rm -f /builddir/bin/scripts/ensemblInfo.pl echo cp -p ensemblInfo.pl /builddir/bin/scripts cp -p ensemblInfo.pl /builddir/bin/scripts cp -p ensemblInfo.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/ensemblInfo.pl rm -f /builddir/bin/scripts/synBlastp.csh echo cp -p synBlastp.csh /builddir/bin/scripts cp -p synBlastp.csh /builddir/bin/scripts cp -p synBlastp.csh /builddir/bin/scripts chmod +x /builddir/bin/scripts/synBlastp.csh rm -f /builddir/bin/scripts/doRecipBest.pl echo cp -p doRecipBest.pl /builddir/bin/scripts cp -p doRecipBest.pl /builddir/bin/scripts cp -p doRecipBest.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doRecipBest.pl rm -f /builddir/bin/scripts/doRepeatMasker.pl echo cp -p doRepeatMasker.pl /builddir/bin/scripts cp -p doRepeatMasker.pl /builddir/bin/scripts cp -p doRepeatMasker.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doRepeatMasker.pl rm -f /builddir/bin/scripts/doRepeatModeler.pl echo cp -p doRepeatModeler.pl /builddir/bin/scripts cp -p doRepeatModeler.pl /builddir/bin/scripts cp -p doRepeatModeler.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doRepeatModeler.pl rm -f /builddir/bin/scripts/doWindowMasker.pl echo cp -p doWindowMasker.pl /builddir/bin/scripts cp -p doWindowMasker.pl /builddir/bin/scripts cp -p doWindowMasker.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doWindowMasker.pl rm -f /builddir/bin/scripts/doSimpleRepeat.pl echo cp -p doSimpleRepeat.pl /builddir/bin/scripts cp -p doSimpleRepeat.pl /builddir/bin/scripts cp -p doSimpleRepeat.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doSimpleRepeat.pl rm -f /builddir/bin/scripts/doSameSpeciesLiftOver.pl echo cp -p doSameSpeciesLiftOver.pl /builddir/bin/scripts cp -p doSameSpeciesLiftOver.pl /builddir/bin/scripts cp -p doSameSpeciesLiftOver.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/doSameSpeciesLiftOver.pl rm -f /builddir/bin/scripts/ensVersions echo cp -p ensVersions /builddir/bin/scripts cp -p ensVersions /builddir/bin/scripts cp -p ensVersions /builddir/bin/scripts chmod +x /builddir/bin/scripts/ensVersions rm -f /builddir/bin/scripts/extractNestedRepeats.pl echo cp -p extractNestedRepeats.pl /builddir/bin/scripts cp -p extractNestedRepeats.pl /builddir/bin/scripts cp -p extractNestedRepeats.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/extractNestedRepeats.pl rm -f /builddir/bin/scripts/extractGtf.pl echo cp -p extractGtf.pl /builddir/bin/scripts cp -p extractGtf.pl /builddir/bin/scripts cp -p extractGtf.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/extractGtf.pl rm -f /builddir/bin/scripts/kmerPairs.pl echo cp -p kmerPairs.pl /builddir/bin/scripts cp -p kmerPairs.pl /builddir/bin/scripts cp -p kmerPairs.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/kmerPairs.pl rm -f /builddir/bin/scripts/kmerCollapsePairedEnds.pl echo cp -p kmerCollapsePairedEnds.pl /builddir/bin/scripts cp -p kmerCollapsePairedEnds.pl /builddir/bin/scripts cp -p kmerCollapsePairedEnds.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/kmerCollapsePairedEnds.pl rm -f /builddir/bin/scripts/kmerPrint.pl echo cp -p kmerPrint.pl /builddir/bin/scripts cp -p kmerPrint.pl /builddir/bin/scripts cp -p kmerPrint.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/kmerPrint.pl rm -f /builddir/bin/scripts/kmerPrint.py echo cp -p kmerPrint.py /builddir/bin/scripts cp -p kmerPrint.py /builddir/bin/scripts cp -p kmerPrint.py /builddir/bin/scripts chmod +x /builddir/bin/scripts/kmerPrint.py rm -f /builddir/bin/scripts/liftRMAlign.pl echo cp -p liftRMAlign.pl /builddir/bin/scripts cp -p liftRMAlign.pl /builddir/bin/scripts cp -p liftRMAlign.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/liftRMAlign.pl rm -f /builddir/bin/scripts/makeDownloads.pl echo cp -p makeDownloads.pl /builddir/bin/scripts cp -p makeDownloads.pl /builddir/bin/scripts cp -p makeDownloads.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/makeDownloads.pl rm -f /builddir/bin/scripts/makeGenomeDb.pl echo cp -p makeGenomeDb.pl /builddir/bin/scripts cp -p makeGenomeDb.pl /builddir/bin/scripts cp -p makeGenomeDb.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/makeGenomeDb.pl rm -f /builddir/bin/scripts/makePushQSql.pl echo cp -p makePushQSql.pl /builddir/bin/scripts cp -p makePushQSql.pl /builddir/bin/scripts cp -p makePushQSql.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/makePushQSql.pl rm -f /builddir/bin/scripts/monthlyUpdateIgtc.csh echo cp -p monthlyUpdateIgtc.csh /builddir/bin/scripts cp -p monthlyUpdateIgtc.csh /builddir/bin/scripts cp -p monthlyUpdateIgtc.csh /builddir/bin/scripts chmod +x /builddir/bin/scripts/monthlyUpdateIgtc.csh rm -f /builddir/bin/scripts/simplePartition.pl echo cp -p simplePartition.pl /builddir/bin/scripts cp -p simplePartition.pl /builddir/bin/scripts cp -p simplePartition.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/simplePartition.pl rm -f /builddir/bin/scripts/partitionSequence.pl echo cp -p partitionSequence.pl /builddir/bin/scripts cp -p partitionSequence.pl /builddir/bin/scripts cp -p partitionSequence.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/partitionSequence.pl rm -f /builddir/bin/scripts/updateIgtc.pl echo cp -p updateIgtc.pl /builddir/bin/scripts cp -p updateIgtc.pl /builddir/bin/scripts cp -p updateIgtc.pl /builddir/bin/scripts chmod +x /builddir/bin/scripts/updateIgtc.pl rm -f /builddir/bin/scripts/unigene.csh echo cp -p unigene.csh /builddir/bin/scripts cp -p unigene.csh /builddir/bin/scripts cp -p unigene.csh /builddir/bin/scripts chmod +x /builddir/bin/scripts/unigene.csh make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/automation' if test -d blatServersCheck ; then cd blatServersCheck && echo blatServersCheck && make ; fi if test -d buildReleaseLog ; then cd buildReleaseLog && echo buildReleaseLog && make ; fi buildReleaseLog make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/buildReleaseLog' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o buildReleaseLog.o -c buildReleaseLog.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o htmlOut.o -c htmlOut.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/buildReleaseLog buildReleaseLog.o htmlOut.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/buildReleaseLog make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/buildReleaseLog' if test -d checkUrlsInTable ; then cd checkUrlsInTable && echo checkUrlsInTable && make ; fi checkUrlsInTable make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/checkUrlsInTable' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o checkUrlsInTable.o -c checkUrlsInTable.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkUrlsInTable checkUrlsInTable.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkUrlsInTable make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/checkUrlsInTable' if test -d geoMirrorNode ; then cd geoMirrorNode && echo geoMirrorNode && make ; fi geoMirrorNode make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/geoMirrorNode' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o geoMirrorNode.o -c geoMirrorNode.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/geoMirrorNode geoMirrorNode.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/geoMirrorNode make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/geoMirrorNode' if test -d hubCrawl ; then cd hubCrawl && echo hubCrawl && make ; fi hubCrawl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/hubCrawl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hubCrawl.o -c hubCrawl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hubCrawl hubCrawl.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hubCrawl make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/hubCrawl' if test -d makeTrackIndex ; then cd makeTrackIndex && echo makeTrackIndex && make ; fi makeTrackIndex make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/makeTrackIndex' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o makeTrackIndex.o -c makeTrackIndex.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/makeTrackIndex makeTrackIndex.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/makeTrackIndex make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/makeTrackIndex' if test -d mysqlSecurityCheck ; then cd mysqlSecurityCheck && echo mysqlSecurityCheck && make ; fi mysqlSecurityCheck make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/mysqlSecurityCheck' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mysqlSecurityCheck.o -c mysqlSecurityCheck.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mysqlSecurityCheck mysqlSecurityCheck.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mysqlSecurityCheck make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/mysqlSecurityCheck' if test -d phyloRenameAndPrune ; then cd phyloRenameAndPrune && echo phyloRenameAndPrune && make ; fi phyloRenameAndPrune make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/phyloRenameAndPrune' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o phyloRenameAndPrune.o -c phyloRenameAndPrune.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/phyloRenameAndPrune phyloRenameAndPrune.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/phyloRenameAndPrune make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/phyloRenameAndPrune' if test -d pslFixCdsJoinGap ; then cd pslFixCdsJoinGap && echo pslFixCdsJoinGap && make ; fi pslFixCdsJoinGap make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/pslFixCdsJoinGap' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o pslFixCdsJoinGap.o -c pslFixCdsJoinGap.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslFixCdsJoinGap pslFixCdsJoinGap.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslFixCdsJoinGap make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/pslFixCdsJoinGap' if test -d pslMismatchGapToBed ; then cd pslMismatchGapToBed && echo pslMismatchGapToBed && make ; fi pslMismatchGapToBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/pslMismatchGapToBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o pslMismatchGapToBed.o -c pslMismatchGapToBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslMismatchGapToBed pslMismatchGapToBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslMismatchGapToBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/pslMismatchGapToBed' if test -d pslUniq ; then cd pslUniq && echo pslUniq && make ; fi pslUniq make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/pslUniq' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o pslUniq.o -c pslUniq.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslUniq pslUniq.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslUniq make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/pslUniq' if test -d refSeqGet ; then cd refSeqGet && echo refSeqGet && make ; fi refSeqGet make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/refSeqGet' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o refSeqVerInfo.o -c refSeqVerInfo.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o refSeqGet.o -c refSeqGet.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/refSeqGet refSeqVerInfo.o refSeqGet.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/refSeqGet make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/refSeqGet' if test -d safePush ; then cd safePush && echo safePush && make ; fi safePush make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/safePush' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o safePush.o -c safePush.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/safePush safePush.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/safePush make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/safePush' if test -d scaffoldFaToAgp ; then cd scaffoldFaToAgp && echo scaffoldFaToAgp && make ; fi scaffoldFaToAgp make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/scaffoldFaToAgp' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o scaffoldFaToAgp.o -c scaffoldFaToAgp.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/scaffoldFaToAgp scaffoldFaToAgp.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/scaffoldFaToAgp make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/scaffoldFaToAgp' if test -d toDev64 ; then cd toDev64 && echo toDev64 && make ; fi toDev64 make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/toDev64' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o toDev64.o -c toDev64.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/toDev64 toDev64.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/toDev64 make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/toDev64' if test -d vcfRenameAndPrune ; then cd vcfRenameAndPrune && echo vcfRenameAndPrune && make ; fi vcfRenameAndPrune make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/vcfRenameAndPrune' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o vcfRenameAndPrune.o -c vcfRenameAndPrune.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/vcfRenameAndPrune vcfRenameAndPrune.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/vcfRenameAndPrune make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/vcfRenameAndPrune' if test -d vcfToHgvs ; then cd vcfToHgvs && echo vcfToHgvs && make ; fi vcfToHgvs make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/vcfToHgvs' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o vcfToHgvs.o -c vcfToHgvs.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/vcfToHgvs vcfToHgvs.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/vcfToHgvs make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/vcfToHgvs' if test -d wigBedToStep ; then cd wigBedToStep && echo wigBedToStep && make ; fi wigBedToStep make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/wigBedToStep' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o wigBedToStep.o -c wigBedToStep.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/wigBedToStep wigBedToStep.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/wigBedToStep make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/wigBedToStep' if test -d bedExtendRanges ; then cd bedExtendRanges && echo bedExtendRanges && make ; fi bedExtendRanges make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bedExtendRanges' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bedExtendRanges.o -c bedExtendRanges.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedExtendRanges bedExtendRanges.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedExtendRanges make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bedExtendRanges' if test -d bedToPsl ; then cd bedToPsl && echo bedToPsl && make ; fi bedToPsl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bedToPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bedToPsl.o -c bedToPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedToPsl bedToPsl.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedToPsl make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bedToPsl' if test -d bedWeedOverlapping ; then cd bedWeedOverlapping && echo bedWeedOverlapping && make ; fi bedWeedOverlapping make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bedWeedOverlapping' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bedWeedOverlapping.o -c bedWeedOverlapping.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedWeedOverlapping bedWeedOverlapping.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedWeedOverlapping make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bedWeedOverlapping' if test -d bedMergeAdjacent ; then cd bedMergeAdjacent && echo bedMergeAdjacent && make ; fi bedMergeAdjacent make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bedMergeAdjacent' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bedMergeAdjacent.o -c bedMergeAdjacent.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedMergeAdjacent bedMergeAdjacent.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedMergeAdjacent make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bedMergeAdjacent' if test -d bedPartition ; then cd bedPartition && echo bedPartition && make ; fi bedPartition make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bedPartition' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bedPartition.o -c bedPartition.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedPartition bedPartition.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedPartition make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bedPartition' if test -d bigChainBreaks ; then cd bigChainBreaks && echo bigChainBreaks && make ; fi bigChainBreaks make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bigChainBreaks' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bigChainBreaks.o -c bigChainBreaks.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigChainBreaks bigChainBreaks.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigChainBreaks make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bigChainBreaks' if test -d bigChainToChain ; then cd bigChainToChain && echo bigChainToChain && make ; fi bigChainToChain make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bigChainToChain' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bigChainToChain.o -c bigChainToChain.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigChainToChain bigChainToChain.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigChainToChain make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bigChainToChain' if test -d bigGenePredToGenePred ; then cd bigGenePredToGenePred && echo bigGenePredToGenePred && make ; fi bigGenePredToGenePred make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bigGenePredToGenePred' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bigGenePredToGenePred.o -c bigGenePredToGenePred.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigGenePredToGenePred bigGenePredToGenePred.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigGenePredToGenePred make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bigGenePredToGenePred' if test -d bigMafToMaf ; then cd bigMafToMaf && echo bigMafToMaf && make ; fi bigMafToMaf make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bigMafToMaf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bigMafToMaf.o -c bigMafToMaf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigMafToMaf bigMafToMaf.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigMafToMaf make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bigMafToMaf' if test -d bigPslToPsl ; then cd bigPslToPsl && echo bigPslToPsl && make ; fi bigPslToPsl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bigPslToPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o bigPslToPsl.o -c bigPslToPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigPslToPsl bigPslToPsl.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigPslToPsl make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/bigPslToPsl' if test -d binFromRange ; then cd binFromRange && echo binFromRange && make ; fi binFromRange make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/binFromRange' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o binFromRange.o -c binFromRange.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/binFromRange binFromRange.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/binFromRange make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/binFromRange' if test -d chainToBigChain ; then cd chainToBigChain && echo chainToBigChain && make ; fi chainToBigChain make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/chainToBigChain' gcc -ggdb -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chainToBigChain.o -c chainToBigChain.c gcc -ggdb -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainToBigChain chainToBigChain.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chainToBigChain make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/chainToBigChain' if test -d chromGraphFromBin ; then cd chromGraphFromBin && echo chromGraphFromBin && make ; fi chromGraphFromBin make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/chromGraphFromBin' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chromGraphFromBin.o -c chromGraphFromBin.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chromGraphFromBin chromGraphFromBin.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chromGraphFromBin make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/chromGraphFromBin' if test -d chromGraphToBin ; then cd chromGraphToBin && echo chromGraphToBin && make ; fi chromGraphToBin make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/chromGraphToBin' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chromGraphToBin.o -c chromGraphToBin.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chromGraphToBin chromGraphToBin.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chromGraphToBin make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/chromGraphToBin' if test -d crTreeIndexBed ; then cd crTreeIndexBed && echo crTreeIndexBed && make ; fi crTreeIndexBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/crTreeIndexBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o crTreeIndexBed.o -c crTreeIndexBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/crTreeIndexBed crTreeIndexBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/crTreeIndexBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/crTreeIndexBed' if test -d crTreeSearchBed ; then cd crTreeSearchBed && echo crTreeSearchBed && make ; fi crTreeSearchBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/crTreeSearchBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o crTreeSearchBed.o -c crTreeSearchBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/crTreeSearchBed crTreeSearchBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/crTreeSearchBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/crTreeSearchBed' if test -d faToVcf ; then cd faToVcf && echo faToVcf && make ; fi faToVcf make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/faToVcf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o faToVcf.o -c faToVcf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faToVcf faToVcf.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faToVcf make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/faToVcf' if test -d gapToLift ; then cd gapToLift && echo gapToLift && make ; fi gapToLift make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/gapToLift' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o gapToLift.o -c gapToLift.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gapToLift gapToLift.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gapToLift make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/gapToLift' if test -d genePredFilter ; then cd genePredFilter && echo genePredFilter && make ; fi genePredFilter make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/genePredFilter' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o genePredFilter.o -c genePredFilter.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredFilter genePredFilter.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredFilter make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/genePredFilter' if test -d genePredToBigGenePred ; then cd genePredToBigGenePred && echo genePredToBigGenePred && make ; fi genePredToBigGenePred make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/genePredToBigGenePred' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o genePredToBigGenePred.o -c genePredToBigGenePred.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredToBigGenePred genePredToBigGenePred.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredToBigGenePred make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/genePredToBigGenePred' if test -d genePredToProt ; then cd genePredToProt && echo genePredToProt && make ; fi genePredToProt make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/genePredToProt' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o genePredToProt.o -c genePredToProt.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredToProt genePredToProt.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredToProt make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/genePredToProt' if test -d gencodeVersionForGenes ; then cd gencodeVersionForGenes && echo gencodeVersionForGenes && make ; fi gencodeVersionForGenes make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/gencodeVersionForGenes' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o gencodeVersionForGenes.o -c gencodeVersionForGenes.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gencodeVersionForGenes gencodeVersionForGenes.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gencodeVersionForGenes make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/gencodeVersionForGenes' if test -d gff3ToGenePred ; then cd gff3ToGenePred && echo gff3ToGenePred && make ; fi gff3ToGenePred make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/gff3ToGenePred' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o gff3ToGenePred.o -c gff3ToGenePred.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gff3ToGenePred gff3ToGenePred.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gff3ToGenePred make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/gff3ToGenePred' if test -d gff3ToPsl ; then cd gff3ToPsl && echo gff3ToPsl && make ; fi gff3ToPsl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/gff3ToPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o gff3ToPsl.o -c gff3ToPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gff3ToPsl gff3ToPsl.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gff3ToPsl make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/gff3ToPsl' if test -d gtfToGenePred ; then cd gtfToGenePred && echo gtfToGenePred && make ; fi gtfToGenePred make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/gtfToGenePred' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o gtfToGenePred.o -c gtfToGenePred.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gtfToGenePred gtfToGenePred.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gtfToGenePred make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/gtfToGenePred' if test -d hicInfo ; then cd hicInfo && echo hicInfo && make ; fi hicInfo make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/hicInfo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hicInfo.o -c hicInfo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hicInfo hicInfo.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hicInfo make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/hicInfo' if test -d hgvsToVcf ; then cd hgvsToVcf && echo hgvsToVcf && make ; fi hgvsToVcf make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/hgvsToVcf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hgvsToVcf.o -c hgvsToVcf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgvsToVcf hgvsToVcf.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgvsToVcf make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/hgvsToVcf' if test -d hubCheck ; then cd hubCheck && echo hubCheck && make ; fi hubCheck make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/hubCheck' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hubCheck.o -c hubCheck.c hubCheck.c: In function ‘hubCheckTrack’: hubCheck.c:924:5: warning: variable ‘trackDbErrorCount’ set but not used [-Wunused-but-set-variable=] 924 | int trackDbErrorCount = 0; | ^~~~~~~~~~~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hubCheck hubCheck.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hubCheck make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/hubCheck' if test -d hubClone ; then cd hubClone && echo hubClone && make ; fi hubClone make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/hubClone' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hubClone.o -c hubClone.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hubClone hubClone.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hubClone make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/hubClone' if test -d hubPublicCheck ; then cd hubPublicCheck && echo hubPublicCheck && make ; fi hubPublicCheck make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/hubPublicCheck' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o hubPublicCheck.o -c hubPublicCheck.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hubPublicCheck hubPublicCheck.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hubPublicCheck make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/hubPublicCheck' if test -d mafToBigMaf ; then cd mafToBigMaf && echo mafToBigMaf && make ; fi mafToBigMaf make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/mafToBigMaf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafToBigMaf.o -c mafToBigMaf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafToBigMaf mafToBigMaf.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafToBigMaf make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/mafToBigMaf' if test -d makeTableList ; then cd makeTableList && echo makeTableList && make ; fi makeTableList make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/makeTableList' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o makeTableList.o -c makeTableList.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/makeTableList makeTableList.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/makeTableList make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/makeTableList' if test -d oligoMatch ; then cd oligoMatch && echo oligoMatch && make ; fi oligoMatch make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/oligoMatch' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o oligoMatch.o -c oligoMatch.c oligoMatch.c: In function ‘oligoMatch’: oligoMatch.c:73:5: warning: variable ‘count’ set but not used [-Wunused-but-set-variable=] 73 | int count = 0; | ^~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/oligoMatch oligoMatch.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/oligoMatch make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/oligoMatch' if test -d overlapSelect ; then cd overlapSelect && echo overlapSelect && make ; fi overlapSelect make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/overlapSelect' echo '/* GENERATED CODE, DO NOT EDIT */' > usage.h.tmp ../../../utils/stringify/stringifyEz -static -var=usageMsg usage.txt >> usage.h.tmp mv -f usage.h.tmp usage.h gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o overlapSelect.o -c overlapSelect.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o rowReader.o -c rowReader.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chromAnn.o -c chromAnn.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o chromAnnMap.o -c chromAnnMap.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o selectTable.o -c selectTable.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o coordCols.o -c coordCols.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/overlapSelect overlapSelect.o rowReader.o chromAnn.o chromAnnMap.o selectTable.o coordCols.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/overlapSelect make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/overlapSelect' if test -d positionalTblCheck ; then cd positionalTblCheck && echo positionalTblCheck && make ; fi positionalTblCheck make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/positionalTblCheck' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o positionalTblCheck.o -c positionalTblCheck.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/positionalTblCheck positionalTblCheck.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/positionalTblCheck make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/positionalTblCheck' if test -d pslLiftSubrangeBlat ; then cd pslLiftSubrangeBlat && echo pslLiftSubrangeBlat && make ; fi pslLiftSubrangeBlat make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/pslLiftSubrangeBlat' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o pslLiftSubrangeBlat.o -c pslLiftSubrangeBlat.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslLiftSubrangeBlat pslLiftSubrangeBlat.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslLiftSubrangeBlat make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/pslLiftSubrangeBlat' if test -d pslToBigPsl ; then cd pslToBigPsl && echo pslToBigPsl && make ; fi pslToBigPsl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/pslToBigPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o pslToBigPsl.o -c pslToBigPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslToBigPsl pslToBigPsl.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslToBigPsl make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/pslToBigPsl' if test -d raSqlQuery ; then cd raSqlQuery && echo raSqlQuery && make ; fi raSqlQuery make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/raSqlQuery' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o raSqlQuery.o -c raSqlQuery.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o raRecord.o -c raRecord.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/raSqlQuery raSqlQuery.o raRecord.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/raSqlQuery make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/raSqlQuery' if test -d rmskAlignToPsl ; then cd rmskAlignToPsl && echo rmskAlignToPsl && make ; fi rmskAlignToPsl make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/rmskAlignToPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o rmskAlignToPsl.o -c rmskAlignToPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/rmskAlignToPsl rmskAlignToPsl.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/rmskAlignToPsl make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/rmskAlignToPsl' if test -d tdbQuery ; then cd tdbQuery && echo tdbQuery && make ; fi tdbQuery make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/tdbQuery' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o tdbQuery.o -c tdbQuery.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o tdbRecord.o -c tdbRecord.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tdbQuery tdbQuery.o tdbRecord.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tdbQuery make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/tdbQuery' if test -d transMapPslToGenePred ; then cd transMapPslToGenePred && echo transMapPslToGenePred && make ; fi transMapPslToGenePred make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/transMapPslToGenePred' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o transMapPslToGenePred.o -c transMapPslToGenePred.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/transMapPslToGenePred transMapPslToGenePred.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/transMapPslToGenePred make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/transMapPslToGenePred' if test -d twoBitMask ; then cd twoBitMask && echo twoBitMask && make ; fi twoBitMask make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/twoBitMask' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o twoBitMask.o -c twoBitMask.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twoBitMask twoBitMask.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twoBitMask make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/twoBitMask' if test -d vcfToBed ; then cd vcfToBed && echo vcfToBed && make ; fi vcfToBed make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/vcfToBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o vcfToBed.o -c vcfToBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/vcfToBed vcfToBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl In function ‘parseColumnHeaderRow’, inlined from ‘vcfFileHeaderFromLineFile’ at ../../../lib/vcf.c:530:1, inlined from ‘vcfTabixFileAndIndexMayOpenExt’ at ../../../lib/vcf.c:1054:24, inlined from ‘vcfTabixFileAndIndexMayOpen’ at ../../../lib/vcf.c:1070:8, inlined from ‘vcfToBed’ at vcfToBed.c:225:12: ../../../lib/vcf.c:416:1: warning: ‘chopByChar’ accessing 8 bytes in a region of size 0 [-Wstringop-overflow=] 416 | chopTabs(line+1, words); | ^ ../../../lib/vcf.c:416:1: note: referencing argument 3 of type ‘char *[0:]’ ../../../lib/common.c: In function ‘vcfToBed’: ../../../lib/common.c:2299:5: note: in a call to function ‘chopByChar’ 2299 | int chopByChar(char *in, char chopper, char *outArray[], int outSize) | ^ true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/vcfToBed make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/vcfToBed' if test -d fixTrackDb ; then cd fixTrackDb && echo fixTrackDb && make ; fi fixTrackDb make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/fixTrackDb' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o fixTrackDb.o -c fixTrackDb.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fixTrackDb fixTrackDb.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fixTrackDb make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils/fixTrackDb' chmod +x archiveTracks.sh rm -f /builddir/bin/scripts/archiveTracks.sh cp -p archiveTracks.sh /builddir/bin/scripts/archiveTracks.sh chmod +x dbNsfpToBed.pl rm -f /builddir/bin/scripts/dbNsfpToBed.pl cp -p dbNsfpToBed.pl /builddir/bin/scripts/dbNsfpToBed.pl chmod +x dumpDb.pl rm -f /builddir/bin/scripts/dumpDb.pl cp -p dumpDb.pl /builddir/bin/scripts/dumpDb.pl chmod +x mergeOverlapBed4.pl rm -f /builddir/bin/scripts/mergeOverlapBed4.pl cp -p mergeOverlapBed4.pl /builddir/bin/scripts/mergeOverlapBed4.pl chmod +x mergeSortedBed3Plus.pl rm -f /builddir/bin/scripts/mergeSortedBed3Plus.pl cp -p mergeSortedBed3Plus.pl /builddir/bin/scripts/mergeSortedBed3Plus.pl chmod +x mysqlRowSizes.pl rm -f /builddir/bin/scripts/mysqlRowSizes.pl cp -p mysqlRowSizes.pl /builddir/bin/scripts/mysqlRowSizes.pl chmod +x vai.pl rm -f /builddir/bin/scripts/vai.pl cp -p vai.pl /builddir/bin/scripts/vai.pl make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/utils' if test -d uniqSize ; then cd uniqSize && echo uniqSize && make ; fi uniqSize make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/uniqSize' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o uniqSize.o -c uniqSize.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/uniqSize uniqSize.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/uniqSize make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/uniqSize' if test -d updateStsInfo ; then cd updateStsInfo && echo updateStsInfo && make ; fi updateStsInfo make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/updateStsInfo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o updateStsInfo.o -c updateStsInfo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/updateStsInfo updateStsInfo.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/updateStsInfo make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/updateStsInfo' if test -d visiGene/knownToVisiGene ; then cd visiGene/knownToVisiGene && echo visiGene/knownToVisiGene && make ; fi if test -d autoDtd ; then cd autoDtd && echo autoDtd && make ; fi autoDtd make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/autoDtd' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o autoDtd.o -c autoDtd.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/autoDtd autoDtd.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/autoDtd make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/autoDtd' if test -d autoSql ; then cd autoSql && echo autoSql && make ; fi autoSql make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/autoSql' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o autoSql.o -c autoSql.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/autoSql autoSql.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/autoSql make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/autoSql' if test -d autoXml ; then cd autoXml && echo autoXml && make ; fi autoXml make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/autoXml' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o autoXml.o -c autoXml.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/autoXml autoXml.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/autoXml make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/autoXml' if test -d bedSort ; then cd bedSort && echo bedSort && make ; fi bedSort make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/bedSort' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedSort.o -c bedSort.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedSort bedSort.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedSort make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/bedSort' if test -d liftUp ; then cd liftUp && echo liftUp && make ; fi liftUp make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/liftUp' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o liftUp.o -c liftUp.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/liftUp liftUp.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/liftUp make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/liftUp' if test -d liftOver ; then cd liftOver && echo liftOver && make ; fi if test -d bedIntersect ; then cd bedIntersect && echo bedIntersect && make ; fi bedIntersect make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/bedIntersect' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedIntersect.o -c bedIntersect.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedIntersect bedIntersect.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedIntersect make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/bedIntersect' if test -d bedItemOverlapCount ; then cd bedItemOverlapCount && echo bedItemOverlapCount && make ; fi bedItemOverlapCount make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/bedItemOverlapCount' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedItemOverlapCount.o -c bedItemOverlapCount.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedItemOverlapCount bedItemOverlapCount.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedItemOverlapCount make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/bedItemOverlapCount' if test -d bedToGenePred ; then cd bedToGenePred && echo bedToGenePred && make ; fi bedToGenePred make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/bedToGenePred' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedToGenePred.o -c bedToGenePred.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedToGenePred bedToGenePred.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedToGenePred make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/bedToGenePred' if test -d blastToPsl ; then cd blastToPsl && echo blastToPsl && make ; fi blastToPsl make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/blastToPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o blastToPsl.o -c blastToPsl.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslBuild.o -c pslBuild.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/blastToPsl blastToPsl.o pslBuild.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/blastToPsl gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o blastXmlToPsl.o -c blastXmlToPsl.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o ncbiBlast.o -c ncbiBlast.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/blastXmlToPsl blastXmlToPsl.o ncbiBlast.o pslBuild.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lmariadb -lz -lpthread -lm -lssl -lcrypto -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/blastXmlToPsl make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/blastToPsl' if test -d checkCoverageGaps ; then cd checkCoverageGaps && echo checkCoverageGaps && make ; fi checkCoverageGaps make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/checkCoverageGaps' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o checkCoverageGaps.o -c checkCoverageGaps.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkCoverageGaps checkCoverageGaps.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkCoverageGaps make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/checkCoverageGaps' if test -d checkTableCoords ; then cd checkTableCoords && echo checkTableCoords && make ; fi checkTableCoords make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/checkTableCoords' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o checkTableCoords.o -c checkTableCoords.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkTableCoords checkTableCoords.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkTableCoords make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/checkTableCoords' if test -d dbTrash ; then cd dbTrash && echo dbTrash && make ; fi dbTrash make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/dbTrash' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o dbTrash.o -c dbTrash.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dbTrash dbTrash.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dbTrash make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/dbTrash' if test -d encode3/validateFiles ; then cd encode3/validateFiles && echo encode3/validateFiles && make ; fi if test -d encode3/validateManifest ; then cd encode3/validateManifest && echo encode3/validateManifest && make ; fi if test -d estOrient ; then cd estOrient && echo estOrient && make ; fi estOrient make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/estOrient' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o estOrient.o -c estOrient.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/estOrient estOrient.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/estOrient make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/estOrient' if test -d featureBits ; then cd featureBits && echo featureBits && make ; fi featureBits make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/featureBits' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o featureBits.o -c featureBits.c featureBits.c: In function ‘featureBits’: featureBits.c:993:12: warning: variable ‘totalBases’ set but not used [-Wunused-but-set-variable=] 993 | double totalBases = 0; | ^~~~~~~~~~ featureBits.c:992:9: warning: variable ‘totalItems’ set but not used [-Wunused-but-set-variable=] 992 | int totalItems = 0; | ^~~~~~~~~~ featureBits.c: In function ‘chromFileName.part.0’: featureBits.c:312:9: warning: ‘strncpy’ specified bound 512 equals destination size [-Wstringop-truncation] 312 | strncpy(fileName, track, 512); | ^ featureBits.c: In function ‘chromFileName’: featureBits.c:297:5: warning: ‘strncpy’ specified bound 512 equals destination size [-Wstringop-truncation] 297 | strncpy(fileName, track, 512); | ^ featureBits.c: In function ‘fbOrPsl’: featureBits.c:297:5: warning: ‘strncpy’ specified bound 512 equals destination size [-Wstringop-truncation] featureBits.c: In function ‘fbOrBed’: featureBits.c:297:5: warning: ‘strncpy’ specified bound 512 equals destination size [-Wstringop-truncation] featureBits.c: In function ‘fbOrBigBed’: featureBits.c:297:5: warning: ‘strncpy’ specified bound 512 equals destination size [-Wstringop-truncation] featureBits.c: In function ‘fbOrChain’: featureBits.c:297:5: warning: ‘strncpy’ specified bound 512 equals destination size [-Wstringop-truncation] featureBits.c: In function ‘isolateTrackPartOfSpec’: featureBits.c:509:1: warning: ‘strncpy’ specified bound 512 equals destination size [-Wstringop-truncation] 509 | strncpy(track, spec, 512); | ^ featureBits.c: In function ‘orTable’: featureBits.c:509:1: warning: ‘strncpy’ specified bound 512 equals destination size [-Wstringop-truncation] featureBits.c: In function ‘chromFeatureSeq’: featureBits.c:509:1: warning: ‘strncpy’ specified bound 512 equals destination size [-Wstringop-truncation] featureBits.c: In function ‘checkInputExists’: featureBits.c:509:1: warning: ‘strncpy’ specified bound 512 equals destination size [-Wstringop-truncation] gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/featureBits featureBits.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/featureBits make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/featureBits' if test -d geneBounds/clusterGenes ; then cd geneBounds/clusterGenes && echo geneBounds/clusterGenes && make ; fi geneBounds/clusterGenes make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/clusterGenes' gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/clusterGenes clusterGenes.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/clusterGenes make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/geneBounds/clusterGenes' if test -d genePredHisto ; then cd genePredHisto && echo genePredHisto && make ; fi genePredHisto make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredHisto' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o genePredHisto.o -c genePredHisto.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredHisto genePredHisto.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredHisto make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredHisto' if test -d genePredSingleCover ; then cd genePredSingleCover && echo genePredSingleCover && make ; fi genePredSingleCover make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredSingleCover' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o genePredSingleCover.o -c genePredSingleCover.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o geneScore.o -c geneScore.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredSingleCover genePredSingleCover.o geneScore.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredSingleCover make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredSingleCover' if test -d genePredToBed ; then cd genePredToBed && echo genePredToBed && make ; fi genePredToBed make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredToBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o genePredToBed.o -c genePredToBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredToBed genePredToBed.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredToBed make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredToBed' if test -d genePredToFakePsl ; then cd genePredToFakePsl && echo genePredToFakePsl && make ; fi genePredToFakePsl make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredToFakePsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o genePredToFakePsl.o -c genePredToFakePsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredToFakePsl genePredToFakePsl.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredToFakePsl make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredToFakePsl' if test -d genePredToMafFrames ; then cd genePredToMafFrames && echo genePredToMafFrames && make ; fi genePredToMafFrames make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredToMafFrames' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o genePredToMafFrames.o -c genePredToMafFrames.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o orgGenes.o -c orgGenes.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o mkMafFrames.o -c mkMafFrames.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o splitMultiMappings.o -c splitMultiMappings.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o finishMafFrames.o -c finishMafFrames.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredToMafFrames genePredToMafFrames.o orgGenes.o mkMafFrames.o splitMultiMappings.o finishMafFrames.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredToMafFrames make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredToMafFrames' if test -d getRna ; then cd getRna && echo getRna && make ; fi getRna make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/getRna' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o getRna.o -c getRna.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/getRna getRna.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/getRna make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/getRna' if test -d getRnaPred ; then cd getRnaPred && echo getRnaPred && make ; fi getRnaPred make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/getRnaPred' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o getRnaPred.o -c getRnaPred.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/getRnaPred getRnaPred.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/getRnaPred make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/getRnaPred' if test -d gigAssembler/checkAgpAndFa ; then cd gigAssembler/checkAgpAndFa && echo gigAssembler/checkAgpAndFa && make ; fi gigAssembler/checkAgpAndFa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gigAssembler/checkAgpAndFa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o checkAgpAndFa.o -c checkAgpAndFa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkAgpAndFa checkAgpAndFa.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/checkAgpAndFa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/gigAssembler/checkAgpAndFa' if test -d hgSpeciesRna ; then cd hgSpeciesRna && echo hgSpeciesRna && make ; fi hgSpeciesRna make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgSpeciesRna' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hgSpeciesRna.o -c hgSpeciesRna.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSpeciesRna hgSpeciesRna.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgSpeciesRna make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgSpeciesRna' if test -d hgsql ; then cd hgsql && echo hgsql && make ; fi hgsql make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgsql' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hgsql.o -c hgsql.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgsql hgsql.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgsql make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgsql' if test -d hgsqldump ; then cd hgsqldump && echo hgsqldump && make ; fi hgsqldump make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgsqldump' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hgsqldump.o -c hgsqldump.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgsqldump hgsqldump.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hgsqldump make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/hgsqldump' if test -d maskOutFa ; then cd maskOutFa && echo maskOutFa && make ; fi maskOutFa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/maskOutFa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o maskOutFa.o -c maskOutFa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/maskOutFa maskOutFa.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/maskOutFa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/maskOutFa' if test -d mrnaToGene ; then cd mrnaToGene && echo mrnaToGene && make ; fi mrnaToGene make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mrnaToGene' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o mrnaToGene.o -c mrnaToGene.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mrnaToGene mrnaToGene.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mrnaToGene make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/mrnaToGene' if test -d ratStuff/mafsInRegion ; then cd ratStuff/mafsInRegion && echo ratStuff/mafsInRegion && make ; fi ratStuff/mafsInRegion make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafsInRegion' make[3]: Nothing to be done for 'default'. make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafsInRegion' if test -d ratStuff/mafSpeciesSubset ; then cd ratStuff/mafSpeciesSubset && echo ratStuff/mafSpeciesSubset && make ; fi ratStuff/mafSpeciesSubset make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafSpeciesSubset' make[3]: Nothing to be done for 'default'. make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafSpeciesSubset' if test -d ratStuff/mafToSnpBed ; then cd ratStuff/mafToSnpBed && echo ratStuff/mafToSnpBed && make ; fi ratStuff/mafToSnpBed make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafToSnpBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mafToSnpBed.o -c mafToSnpBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafToSnpBed mafToSnpBed.o ../../../lib/aarch64/jkhgap.a ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mafToSnpBed make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/ratStuff/mafToSnpBed' if test -d pslCDnaFilter ; then cd pslCDnaFilter && echo pslCDnaFilter && make ; fi pslCDnaFilter make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslCDnaFilter' echo '/* GENERATED CODE, DO NOT EDIT */' > usage.h.tmp ../../utils/stringify/stringifyEz -static -var=usageMsg usage.txt >> usage.h.tmp mv -f usage.h.tmp usage.h echo '/* GENERATED CODE, DO NOT EDIT */' > algo.h.tmp ../../utils/stringify/stringifyEz -static -var=usageMsg algo.txt >> algo.h.tmp mv -f algo.h.tmp algo.h gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslCDnaFilter.o -c pslCDnaFilter.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o cDnaAligns.o -c cDnaAligns.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o cDnaStats.o -c cDnaStats.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o cDnaReader.o -c cDnaReader.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o overlapFilter.o -c overlapFilter.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o globalNearBestFilter.o -c globalNearBestFilter.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o localNearBestFilter.o -c localNearBestFilter.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o polyASize.o -c polyASize.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hapRegions.o -c hapRegions.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslCDnaFilter pslCDnaFilter.o cDnaAligns.o cDnaStats.o cDnaReader.o overlapFilter.o globalNearBestFilter.o localNearBestFilter.o polyASize.o hapRegions.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslCDnaFilter make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslCDnaFilter' if test -d genePredCheck ; then cd genePredCheck && echo genePredCheck && make ; fi genePredCheck make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredCheck' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o genePredCheck.o -c genePredCheck.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredCheck genePredCheck.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredCheck make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredCheck' if test -d genePredToGtf ; then cd genePredToGtf && echo genePredToGtf && make ; fi genePredToGtf make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredToGtf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o genePredToGtf.o -c genePredToGtf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredToGtf genePredToGtf.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/genePredToGtf make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/genePredToGtf' if test -d pslCat ; then cd pslCat && echo pslCat && make ; fi pslCat make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslCat' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslCat.o -c pslCat.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslCat pslCat.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslCat make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslCat' if test -d pslCheck ; then cd pslCheck && echo pslCheck && make ; fi pslCheck make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslCheck' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslCheck.o -c pslCheck.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslCheck pslCheck.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslCheck make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslCheck' if test -d pslDropOverlap ; then cd pslDropOverlap && echo pslDropOverlap && make ; fi pslDropOverlap make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslDropOverlap' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslDropOverlap.o -c pslDropOverlap.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslDropOverlap pslDropOverlap.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslDropOverlap make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslDropOverlap' if test -d pslFilter ; then cd pslFilter && echo pslFilter && make ; fi pslFilter make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslFilter' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslFilter.o -c pslFilter.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslFilter pslFilter.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslFilter make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslFilter' if test -d pslHisto ; then cd pslHisto && echo pslHisto && make ; fi pslHisto make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslHisto' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslHisto.o -c pslHisto.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslHisto pslHisto.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslHisto make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslHisto' if test -d pslPairs ; then cd pslPairs && echo pslPairs && make ; fi pslPairs make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslPairs' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslPairs.o -c pslPairs.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslPairs pslPairs.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslPairs make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslPairs' if test -d pslPartition ; then cd pslPartition && echo pslPartition && make ; fi pslPartition make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslPartition' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslPartition.o -c pslPartition.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslPartition pslPartition.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslPartition make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslPartition' if test -d pslPretty ; then cd pslPretty && echo pslPretty && make ; fi pslPretty make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslPretty' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslPretty.o -c pslPretty.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslPretty pslPretty.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslPretty make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslPretty' if test -d pslRecalcMatch ; then cd pslRecalcMatch && echo pslRecalcMatch && make ; fi pslRecalcMatch make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslRecalcMatch' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslRecalcMatch.o -c pslRecalcMatch.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslRecalcMatch pslRecalcMatch.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslRecalcMatch make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslRecalcMatch' if test -d pslReps ; then cd pslReps && echo pslReps && make ; fi pslReps make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslReps' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslReps.o -c pslReps.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslReps pslReps.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslReps make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslReps' if test -d pslSelect ; then cd pslSelect && echo pslSelect && make ; fi pslSelect make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslSelect' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslSelect.o -c pslSelect.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSelect pslSelect.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSelect make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslSelect' if test -d pslSomeRecords ; then cd pslSomeRecords && echo pslSomeRecords && make ; fi pslSomeRecords make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslSomeRecords' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslSomeRecords.o -c pslSomeRecords.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSomeRecords pslSomeRecords.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSomeRecords make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslSomeRecords' if test -d pslSort ; then cd pslSort && echo pslSort && make ; fi pslSort make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslSort' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslSort.o -c pslSort.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSort pslSort.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSort make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslSort' if test -d pslStats ; then cd pslStats && echo pslStats && make ; fi pslStats make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslStats' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslStats.o -c pslStats.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslStats pslStats.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslStats make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslStats' if test -d pslToBed ; then cd pslToBed && echo pslToBed && make ; fi pslToBed make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslToBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslToBed.o -c pslToBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslToBed pslToBed.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslToBed make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslToBed' if test -d pslToChain ; then cd pslToChain && echo pslToChain && make ; fi pslToChain make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslToChain' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslToChain.o -c pslToChain.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslToChain pslToChain.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslToChain make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslToChain' if test -d pslxToFa ; then cd pslxToFa && echo pslxToFa && make ; fi pslxToFa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslxToFa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslxToFa.o -c pslxToFa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslxToFa pslxToFa.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslxToFa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/pslxToFa' if test -d qaToQac ; then cd qaToQac && echo qaToQac && make ; fi qaToQac make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/qaToQac' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o qaToQac.o -c qaToQac.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/qaToQac qaToQac.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/qaToQac make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/qaToQac' if test -d qacAgpLift ; then cd qacAgpLift && echo qacAgpLift && make ; fi qacAgpLift make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/qacAgpLift' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o qacAgpLift.o -c qacAgpLift.c qacAgpLift.c: In function ‘qacAgpLift’: qacAgpLift.c:163:5: warning: variable ‘count’ set but not used [-Wunused-but-set-variable=] 163 | int count = 0; | ^~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/qacAgpLift qacAgpLift.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/qacAgpLift make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/qacAgpLift' if test -d qacToQa ; then cd qacToQa && echo qacToQa && make ; fi qacToQa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/qacToQa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o qacToQa.o -c qacToQa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/qacToQa qacToQa.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/qacToQa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/qacToQa' if test -d qacToWig ; then cd qacToWig && echo qacToWig && make ; fi qacToWig make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/qacToWig' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o qacToWig.o -c qacToWig.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/qacToWig qacToWig.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/qacToWig make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/qacToWig' if test -d sqlToXml ; then cd sqlToXml && echo sqlToXml && make ; fi sqlToXml make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/sqlToXml' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o sqlToXml.o -c sqlToXml.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/sqlToXml sqlToXml.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/sqlToXml make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/sqlToXml' if test -d trfBig ; then cd trfBig && echo trfBig && make ; fi trfBig make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/trfBig' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o trfBig.o -c trfBig.c trfBig.c: In function ‘trfBig’: trfBig.c:123:25: warning: ‘.2.7.7.80.10.50.’ directive writing 16 bytes into a region of size between 1 and 512 [-Wformat-overflow=] 123 | sprintf(trfRootName, "%s.2.7.7.80.10.50.%d", faFile, maxPeriod); | ^~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:974, from ../../inc/common.h:30, from trfBig.c:5: In function ‘sprintf’, inlined from ‘makeTrfRootName’ at trfBig.c:123:1, inlined from ‘trfBig’ at trfBig.c:219:2: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 18 and 539 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 ()); | ~~~~~~~~~~~~~~~~~ trfBig.c: In function ‘trfBig’: trfBig.c:123:25: warning: ‘.2.7.7.80.10.50.’ directive writing 16 bytes into a region of size between 1 and 512 [-Wformat-overflow=] 123 | sprintf(trfRootName, "%s.2.7.7.80.10.50.%d", faFile, maxPeriod); | ^~~~~~~~~~~~~~~~ In function ‘sprintf’, inlined from ‘makeTrfRootName’ at trfBig.c:123:1, inlined from ‘trfBig’ at trfBig.c:256:6: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 18 and 539 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 ()); | ~~~~~~~~~~~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trfBig trfBig.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trfBig make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/trfBig' if test -d xmlCat ; then cd xmlCat && echo xmlCat && make ; fi xmlCat make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/xmlCat' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o xmlCat.o -c xmlCat.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/xmlCat xmlCat.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/xmlCat make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/xmlCat' if test -d xmlToSql ; then cd xmlToSql && echo xmlToSql && make ; fi xmlToSql make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/xmlToSql' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o xmlToSql.o -c xmlToSql.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o elStat.o -c elStat.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o rename.o -c rename.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tables.o -c tables.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/xmlToSql xmlToSql.o elStat.o rename.o tables.o ../../lib/aarch64/jkhgap.a ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/xmlToSql make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg/xmlToSql' make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/hg' make -C utils make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils' cd addCols && echo addCols && make addCols make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/addCols' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o addCols.o -c addCols.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/addCols addCols.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/addCols make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/addCols' cd ave && echo ave && make ave make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/ave' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o ave.o -c ave.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ave ave.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ave make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/ave' cd aveCols && echo aveCols && make aveCols make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/aveCols' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o aveCols.o -c aveCols.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/aveCols aveCols.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/aveCols make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/aveCols' cd bamToPsl && echo bamToPsl && make bamToPsl make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bamToPsl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bamToPsl.o -c bamToPsl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bamToPsl bamToPsl.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bamToPsl make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bamToPsl' cd bedClip && echo bedClip && make bedClip make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedClip' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedClip.o -c bedClip.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedClip bedClip.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedClip make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedClip' cd bedGraphToBigWig && echo bedGraphToBigWig && make bedGraphToBigWig make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedGraphToBigWig' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedGraphToBigWig.o -c bedGraphToBigWig.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedGraphToBigWig bedGraphToBigWig.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedGraphToBigWig make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedGraphToBigWig' cd bedJoinTabOffset && echo bedJoinTabOffset && make bedJoinTabOffset make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedJoinTabOffset' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedJoinTabOffset.o -c bedJoinTabOffset.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedJoinTabOffset bedJoinTabOffset.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedJoinTabOffset make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedJoinTabOffset' cd bedToBigBed && echo bedToBigBed && make bedToBigBed make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedToBigBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedToBigBed.o -c bedToBigBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedToBigBed bedToBigBed.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedToBigBed make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedToBigBed' cd bigBedInfo && echo bigBedInfo && make bigBedInfo make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigBedInfo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bigBedInfo.o -c bigBedInfo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigBedInfo bigBedInfo.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigBedInfo make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigBedInfo' cd bigBedNamedItems && echo bigBedNamedItems && make bigBedNamedItems make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigBedNamedItems' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bigBedNamedItems.o -c bigBedNamedItems.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigBedNamedItems bigBedNamedItems.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigBedNamedItems make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigBedNamedItems' cd bigBedSummary && echo bigBedSummary && make bigBedSummary make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigBedSummary' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bigBedSummary.o -c bigBedSummary.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigBedSummary bigBedSummary.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigBedSummary make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigBedSummary' cd bigBedToBed && echo bigBedToBed && make bigBedToBed make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigBedToBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bigBedToBed.o -c bigBedToBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigBedToBed bigBedToBed.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigBedToBed make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigBedToBed' cd bedCommonRegions && echo bedCommonRegions && make bedCommonRegions make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedCommonRegions' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedCommonRegions.o -c bedCommonRegions.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedCommonRegions bedCommonRegions.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedCommonRegions make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedCommonRegions' cd bedGeneParts && echo bedGeneParts && make bedGeneParts make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedGeneParts' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedGeneParts.o -c bedGeneParts.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedGeneParts bedGeneParts.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedGeneParts make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedGeneParts' cd bedGraphPack && echo bedGraphPack && make bedGraphPack make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedGraphPack' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedGraphPack.o -c bedGraphPack.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedGraphPack bedGraphPack.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedGraphPack make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedGraphPack' cd bedPileUps && echo bedPileUps && make bedPileUps make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedPileUps' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedPileUps.o -c bedPileUps.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedPileUps bedPileUps.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedPileUps make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedPileUps' cd bedRemoveOverlap && echo bedRemoveOverlap && make bedRemoveOverlap make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedRemoveOverlap' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedRemoveOverlap.o -c bedRemoveOverlap.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedRemoveOverlap bedRemoveOverlap.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedRemoveOverlap make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedRemoveOverlap' cd bedRestrictToPositions && echo bedRestrictToPositions && make bedRestrictToPositions make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedRestrictToPositions' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bedRestrictToPositions.o -c bedRestrictToPositions.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedRestrictToPositions bedRestrictToPositions.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bedRestrictToPositions make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bedRestrictToPositions' cd bigWigAverageOverBed && echo bigWigAverageOverBed && make bigWigAverageOverBed make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigAverageOverBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bigWigAverageOverBed.o -c bigWigAverageOverBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigAverageOverBed bigWigAverageOverBed.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigAverageOverBed make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigAverageOverBed' cd bigWigCat && echo bigWigCat && make bigWigCat make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigCat' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bigWigCat.o -c bigWigCat.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigCat bigWigCat.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigCat make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigCat' cd bigWigCorrelate && echo bigWigCorrelate && make bigWigCorrelate make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigCorrelate' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bigWigCorrelate.o -c bigWigCorrelate.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigCorrelate bigWigCorrelate.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigCorrelate make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigCorrelate' cd bigWigCluster && echo bigWigCluster && make bigWigCluster make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigCluster' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bigWigCluster.o -c bigWigCluster.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigCluster bigWigCluster.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigCluster make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigCluster' cd bigWigInfo && echo bigWigInfo && make bigWigInfo make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigInfo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bigWigInfo.o -c bigWigInfo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigInfo bigWigInfo.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigInfo make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigInfo' cd bigWigMerge && echo bigWigMerge && make bigWigMerge make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigMerge' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bigWigMerge.o -c bigWigMerge.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigMerge bigWigMerge.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigMerge make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigMerge' cd bigWigSummary && echo bigWigSummary && make bigWigSummary make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigSummary' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bigWigSummary.o -c bigWigSummary.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigSummary bigWigSummary.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigSummary make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigSummary' cd bigWigToBedGraph && echo bigWigToBedGraph && make bigWigToBedGraph make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigToBedGraph' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bigWigToBedGraph.o -c bigWigToBedGraph.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigToBedGraph bigWigToBedGraph.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigToBedGraph make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigToBedGraph' cd bigWigToWig && echo bigWigToWig && make bigWigToWig make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigToWig' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bigWigToWig.o -c bigWigToWig.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigToWig bigWigToWig.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bigWigToWig make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/bigWigToWig' cd calc && echo calc && make calc make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/calc' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o calc.o -c calc.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/calc calc.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/calc make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/calc' cd catDir && echo catDir && make catDir make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/catDir' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o catDir.o -c catDir.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/catDir catDir.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/catDir make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/catDir' cd catUncomment && echo catUncomment && make catUncomment make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/catUncomment' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o catUncomment.o -c catUncomment.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/catUncomment catUncomment.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/catUncomment make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/catUncomment' cd chopFaLines && echo chopFaLines && make chopFaLines make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/chopFaLines' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o chopFaLines.o -c chopFaLines.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chopFaLines chopFaLines.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/chopFaLines make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/chopFaLines' cd colTransform && echo colTransform && make colTransform make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/colTransform' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o colTransform.o -c colTransform.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/colTransform colTransform.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/colTransform make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/colTransform' cd countChars && echo countChars && make countChars make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/countChars' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o countChars.o -c countChars.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/countChars countChars.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/countChars make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/countChars' cd endsInLf && echo endsInLf && make endsInLf make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/endsInLf' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o endsInLf.o -c endsInLf.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/endsInLf endsInLf.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/endsInLf make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/endsInLf' cd clusterMatrixToBarChartBed && echo clusterMatrixToBarChartBed && make clusterMatrixToBarChartBed make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/clusterMatrixToBarChartBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o clusterMatrixToBarChartBed.o -c clusterMatrixToBarChartBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/clusterMatrixToBarChartBed clusterMatrixToBarChartBed.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/clusterMatrixToBarChartBed make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/clusterMatrixToBarChartBed' cd cpgIslandExt && echo cpgIslandExt && make cpgIslandExt make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/cpgIslandExt' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o cpg_lh.o -c cpg_lh.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o readseq.o -c readseq.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/cpg_lh cpg_lh.o readseq.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/cpg_lh make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/cpgIslandExt' cd faAlign && echo faAlign && make faAlign make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faAlign' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faAlign.o -c faAlign.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faAlign faAlign.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faAlign make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faAlign' cd fastqToFa && echo fastqToFa && make fastqToFa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/fastqToFa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o fastqToFa.o -c fastqToFa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fastqToFa fastqToFa.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fastqToFa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/fastqToFa' cd fastqStatsAndSubsample && echo fastqStatsAndSubsample && make fastqStatsAndSubsample make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/fastqStatsAndSubsample' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o fastqStatsAndSubsample.o -c fastqStatsAndSubsample.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fastqStatsAndSubsample fastqStatsAndSubsample.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fastqStatsAndSubsample make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/fastqStatsAndSubsample' cd faCmp && echo faCmp && make faCmp make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faCmp' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faCmp.o -c faCmp.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faCmp faCmp.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faCmp make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faCmp' cd faCount && echo faCount && make faCount make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faCount' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faCount.o -c faCount.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faCount faCount.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faCount make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faCount' cd faFilterN && echo faFilterN && make faFilterN make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faFilterN' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faFilterN.o -c faFilterN.c faFilterN.c: In function ‘faFilterN’: faFilterN.c:130:19: warning: variable ‘passCount’ set but not used [-Wunused-but-set-variable=] 130 | int seqCount = 0, passCount = 0; | ^~~~~~~~~ faFilterN.c:130:5: warning: variable ‘seqCount’ set but not used [-Wunused-but-set-variable=] 130 | int seqCount = 0, passCount = 0; | ^~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faFilterN faFilterN.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faFilterN make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faFilterN' cd faFilter && echo faFilter && make faFilter make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faFilter' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faFilter.o -c faFilter.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faFilter faFilter.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faFilter make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faFilter' cd faFrag && echo faFrag && make faFrag make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faFrag' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faFrag.o -c faFrag.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faFrag faFrag.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faFrag make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faFrag' cd faNoise && echo faNoise && make faNoise make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faNoise' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faNoise.o -c faNoise.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faNoise faNoise.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faNoise make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faNoise' cd faOneRecord && echo faOneRecord && make faOneRecord make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faOneRecord' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faOneRecord.o -c faOneRecord.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faOneRecord faOneRecord.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faOneRecord make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faOneRecord' cd faPolyASizes && echo faPolyASizes && make faPolyASizes make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faPolyASizes' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faPolyASizes.o -c faPolyASizes.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faPolyASizes faPolyASizes.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faPolyASizes make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faPolyASizes' cd faRandomize && echo faRandomize && make faRandomize make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faRandomize' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faRandomize.o -c faRandomize.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faRandomize faRandomize.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faRandomize make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faRandomize' cd faRc && echo faRc && make faRc make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faRc' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faRc.o -c faRc.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faRc faRc.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faRc make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faRc' cd faSize && echo faSize && make faSize make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faSize' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faSize.o -c faSize.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faSize faSize.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faSize make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faSize' cd faSomeRecords && echo faSomeRecords && make faSomeRecords make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faSomeRecords' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faSomeRecords.o -c faSomeRecords.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faSomeRecords faSomeRecords.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faSomeRecords make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faSomeRecords' cd faSplit && echo faSplit && make faSplit make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faSplit' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faSplit.o -c faSplit.c faSplit.c: In function ‘splitByBase’: faSplit.c:159:5: warning: ‘strncpy’ specified bound 128 equals destination size [-Wstringop-truncation] 159 | strncpy(seqName, line, sizeof(seqName)); | ^ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faSplit faSplit.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faSplit make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faSplit' cd faToFastq && echo faToFastq && make faToFastq make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faToFastq' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faToFastq.o -c faToFastq.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faToFastq faToFastq.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faToFastq make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faToFastq' cd faToTab && echo faToTab && make faToTab make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faToTab' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faToTab.o -c faToTab.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faToTab faToTab.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faToTab make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faToTab' cd faToTwoBit && echo faToTwoBit && make faToTwoBit make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faToTwoBit' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faToTwoBit.o -c faToTwoBit.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faToTwoBit faToTwoBit.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faToTwoBit make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faToTwoBit' cd faTrans && echo faTrans && make faTrans make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faTrans' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faTrans.o -c faTrans.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faTrans faTrans.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faTrans make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faTrans' cd findMotif && echo findMotif && make findMotif make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/findMotif' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o findMotif.o -c findMotif.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/findMotif findMotif.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/findMotif make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/findMotif' cd headRest && echo headRest && make headRest make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/headRest' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o headRest.o -c headRest.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/headRest headRest.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/headRest make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/headRest' cd htmlCheck && echo htmlCheck && make htmlCheck make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/htmlCheck' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o htmlCheck.o -c htmlCheck.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/htmlCheck htmlCheck.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/htmlCheck make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/htmlCheck' cd matrixClusterColumns && echo matrixClusterColumns && make matrixClusterColumns make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/matrixClusterColumns' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o matrixClusterColumns.o -c matrixClusterColumns.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/matrixClusterColumns matrixClusterColumns.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/matrixClusterColumns make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/matrixClusterColumns' cd matrixMarketToTsv && echo matrixMarketToTsv && make matrixMarketToTsv make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/matrixMarketToTsv' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o matrixMarketToTsv.o -c matrixMarketToTsv.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/matrixMarketToTsv matrixMarketToTsv.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/matrixMarketToTsv make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/matrixMarketToTsv' cd matrixNormalize && echo matrixNormalize && make matrixNormalize make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/matrixNormalize' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o matrixNormalize.o -c matrixNormalize.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/matrixNormalize matrixNormalize.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/matrixNormalize make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/matrixNormalize' cd matrixToBarChartBed && echo matrixToBarChartBed && make matrixToBarChartBed make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/matrixToBarChartBed' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o matrixToBarChartBed.o -c matrixToBarChartBed.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/matrixToBarChartBed matrixToBarChartBed.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/matrixToBarChartBed make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/matrixToBarChartBed' cd newProg && echo newProg && make newProg make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/newProg' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o newProg.o -c newProg.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/newProg newProg.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/newProg make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/newProg' cd newPythonProg && echo newPythonProg && make newPythonProg make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/newPythonProg' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o newPythonProg.o -c newPythonProg.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/newPythonProg newPythonProg.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/newPythonProg make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/newPythonProg' cd nibFrag && echo nibFrag && make nibFrag make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/nibFrag' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o nibFrag.o -c nibFrag.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nibFrag nibFrag.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nibFrag make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/nibFrag' cd nibSize && echo nibSize && make nibSize make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/nibSize' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o nibSize.o -c nibSize.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nibSize nibSize.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nibSize make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/nibSize' cd paraFetch && echo paraFetch && make paraFetch make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/paraFetch' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o paraFetch.o -c paraFetch.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/paraFetch paraFetch.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/paraFetch make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/paraFetch' cd paraSync && echo paraSync && make paraSync make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/paraSync' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o paraSync.o -c paraSync.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/paraSync paraSync.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/paraSync make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/paraSync' cd pslMap && echo pslMap && make pslMap make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslMap' echo '/* GENERATED CODE, DO NOT EDIT */' > usage.msg.tmp sed -Ee 's/^.*$/"&\\n"/' usage.txt >> usage.msg.tmp mv -f usage.msg.tmp usage.msg gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslMap.o -c pslMap.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslMap pslMap.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslMap make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslMap' cd pslMapPostChain && echo pslMapPostChain && make pslMapPostChain make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslMapPostChain' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslMapPostChain.o -c pslMapPostChain.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslMapPostChain pslMapPostChain.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslMapPostChain make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslMapPostChain' cd pslPosTarget && echo pslPosTarget && make pslPosTarget make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslPosTarget' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslPosTarget.o -c pslPosTarget.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslPosTarget pslPosTarget.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslPosTarget make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslPosTarget' cd pslProtToRnaCoords && echo pslProtToRnaCoords && make pslProtToRnaCoords make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslProtToRnaCoords' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslProtToRnaCoords.o -c pslProtToRnaCoords.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslProtToRnaCoords pslProtToRnaCoords.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslProtToRnaCoords make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslProtToRnaCoords' cd pslRc && echo pslRc && make pslRc make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslRc' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslRc.o -c pslRc.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslRc pslRc.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslRc make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslRc' cd pslRemoveFrameShifts && echo pslRemoveFrameShifts && make pslRemoveFrameShifts make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslRemoveFrameShifts' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslRemoveFrameShifts.o -c pslRemoveFrameShifts.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslRemoveFrameShifts pslRemoveFrameShifts.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslRemoveFrameShifts make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslRemoveFrameShifts' cd pslScore && echo pslScore && make pslScore make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslScore' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslScore.o -c pslScore.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslScore pslScore.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslScore make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslScore' cd pslSpliceJunctions && echo pslSpliceJunctions && make pslSpliceJunctions make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslSpliceJunctions' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslSpliceJunctions.o -c pslSpliceJunctions.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSpliceJunctions pslSpliceJunctions.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSpliceJunctions make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslSpliceJunctions' cd pslSwap && echo pslSwap && make pslSwap make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslSwap' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslSwap.o -c pslSwap.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSwap pslSwap.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslSwap make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslSwap' cd pslToPslx && echo pslToPslx && make pslToPslx make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslToPslx' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslToPslx.o -c pslToPslx.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslToPslx pslToPslx.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslToPslx make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslToPslx' cd randomLines && echo randomLines && make randomLines make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/randomLines' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o randomLines.o -c randomLines.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/randomLines randomLines.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/randomLines make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/randomLines' cd raToTab && echo raToTab && make raToTab make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/raToTab' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o raToTab.o -c raToTab.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/raToTab raToTab.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/raToTab make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/raToTab' cd raToLines && echo raToLines && make raToLines make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/raToLines' cd raToLines && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/raToLines/raToLines' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o raToLines.o -c raToLines.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/raToLines raToLines.o ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/raToLines make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/raToLines/raToLines' cd linesToRa && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/raToLines/linesToRa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o linesToRa.o -c linesToRa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/linesToRa linesToRa.o ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/linesToRa make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/raToLines/linesToRa' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/raToLines' cd rmFaDups && echo rmFaDups && make rmFaDups make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/rmFaDups' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o rmFaDups.o -c rmFaDups.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/rmFaDups rmFaDups.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/rmFaDups make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/rmFaDups' cd rowsToCols && echo rowsToCols && make rowsToCols make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/rowsToCols' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o rowsToCols.o -c rowsToCols.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/rowsToCols rowsToCols.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/rowsToCols make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/rowsToCols' cd sizeof && echo sizeof && make sizeof make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/sizeof' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o sizeof.o -c sizeof.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/sizeof sizeof.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/sizeof make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/sizeof' cd spacedToTab && echo spacedToTab && make spacedToTab make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/spacedToTab' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o spacedToTab.o -c spacedToTab.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/spacedToTab spacedToTab.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/spacedToTab make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/spacedToTab' cd splitFile && echo splitFile && make splitFile make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/splitFile' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o splitFile.o -c splitFile.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/splitFile splitFile.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/splitFile make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/splitFile' cd splitFileByColumn && echo splitFileByColumn && make splitFileByColumn make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/splitFileByColumn' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o splitFileByColumn.o -c splitFileByColumn.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/splitFileByColumn splitFileByColumn.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/splitFileByColumn make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/splitFileByColumn' cd strexCalc && echo strexCalc && make strexCalc make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/strexCalc' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o strexCalc.o -c strexCalc.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/strexCalc strexCalc.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/strexCalc make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/strexCalc' cd stringify && echo stringify && make stringify make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/stringify' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o stringify.o -c stringify.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/stringify stringify.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/stringify make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/stringify' cd subChar && echo subChar && make subChar make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/subChar' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o subChar.o -c subChar.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/subChar subChar.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/subChar make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/subChar' cd subColumn && echo subColumn && make subColumn make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/subColumn' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o subColumn.o -c subColumn.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/subColumn subColumn.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/subColumn make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/subColumn' cd tabFmt && echo tabFmt && make tabFmt make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/tabFmt' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tabFmt.o -c tabFmt.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabFmt tabFmt.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabFmt make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/tabFmt' cd tailLines && echo tailLines && make tailLines make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/tailLines' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tailLines.o -c tailLines.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tailLines tailLines.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tailLines make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/tailLines' cd textHistogram && echo textHistogram && make textHistogram make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/textHistogram' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o textHistogram.o -c textHistogram.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/textHistogram textHistogram.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/textHistogram make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/textHistogram' cd tickToDate && echo tickToDate && make tickToDate make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/tickToDate' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tickToDate.o -c tickToDate.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tickToDate tickToDate.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tickToDate make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/tickToDate' cd timing && echo timing && make timing make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/timing' cd gmtime && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/timing/gmtime' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o gmtime.o -c gmtime.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gmtime gmtime.o ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gmtime make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/timing/gmtime' cd mktime && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/timing/mktime' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o mktime.o -c mktime.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mktime mktime.o ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/mktime make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/timing/mktime' cd localtime && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/timing/localtime' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../../htslib -I/usr/include/libpng16 -o localtime.o -c localtime.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/localtime localtime.o ../../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/localtime make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/timing/localtime' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/timing' cd toLower && echo toLower && make toLower make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/toLower' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o toLower.o -c toLower.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/toLower toLower.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/toLower make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/toLower' cd toUpper && echo toUpper && make toUpper make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/toUpper' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o toUpper.o -c toUpper.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/toUpper toUpper.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/toUpper make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/toUpper' cd trackDbIndexBb && echo trackDbIndexBb && make trackDbIndexBb make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/trackDbIndexBb' rm -f /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trackDbIndexBb cp -p trackDbIndexBb /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trackDbIndexBb make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/trackDbIndexBb' cd twoBitDup && echo twoBitDup && make twoBitDup make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/twoBitDup' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o twoBitDup.o -c twoBitDup.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twoBitDup twoBitDup.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twoBitDup make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/twoBitDup' cd twoBitInfo && echo twoBitInfo && make twoBitInfo make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/twoBitInfo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o twoBitInfo.o -c twoBitInfo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twoBitInfo twoBitInfo.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twoBitInfo make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/twoBitInfo' cd twoBitToFa && echo twoBitToFa && make twoBitToFa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/twoBitToFa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o twoBitToFa.o -c twoBitToFa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twoBitToFa twoBitToFa.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/twoBitToFa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/twoBitToFa' cd wigCorrelate && echo wigCorrelate && make wigCorrelate make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/wigCorrelate' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o wigCorrelate.o -c wigCorrelate.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/wigCorrelate wigCorrelate.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/wigCorrelate make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/wigCorrelate' cd wigToBigWig && echo wigToBigWig && make wigToBigWig make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/wigToBigWig' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o wigToBigWig.o -c wigToBigWig.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/wigToBigWig wigToBigWig.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/wigToBigWig make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/wigToBigWig' cd wordLine && echo wordLine && make wordLine make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/wordLine' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o wordLine.o -c wordLine.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/wordLine wordLine.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/wordLine make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/wordLine' cd aNotB && echo aNotB && make aNotB make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/aNotB' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o aNotB.o -c aNotB.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/aNotB aNotB.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/aNotB make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/aNotB' cd ccCp && echo ccCp && make ccCp make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/ccCp' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o ccCp.o -c ccCp.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ccCp ccCp.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ccCp make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/ccCp' cd convolve && echo convolve && make convolve make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/convolve' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o convolve.o -c convolve.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/convolve convolve.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/convolve make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/convolve' cd detab && echo detab && make detab make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/detab' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o detab.o -c detab.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/detab detab.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/detab make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/detab' cd dnsInfo && echo dnsInfo && make dnsInfo make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/dnsInfo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o dnsInfo.o -c dnsInfo.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dnsInfo dnsInfo.o ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm -lresolv true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dnsInfo make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/dnsInfo' cd faFlyBaseToUcsc && echo faFlyBaseToUcsc && make faFlyBaseToUcsc make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faFlyBaseToUcsc' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faFlyBaseToUcsc.o -c faFlyBaseToUcsc.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faFlyBaseToUcsc faFlyBaseToUcsc.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faFlyBaseToUcsc make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faFlyBaseToUcsc' cd faGapLocs && echo faGapLocs && make faGapLocs make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faGapLocs' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faGapLocs.o -c faGapLocs.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faGapLocs faGapLocs.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faGapLocs make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faGapLocs' cd faGapSizes && echo faGapSizes && make faGapSizes make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faGapSizes' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faGapSizes.o -c faGapSizes.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faGapSizes faGapSizes.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faGapSizes make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faGapSizes' cd faNcbiToUcsc && echo faNcbiToUcsc && make faNcbiToUcsc make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faNcbiToUcsc' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faNcbiToUcsc.o -c faNcbiToUcsc.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faNcbiToUcsc faNcbiToUcsc.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faNcbiToUcsc make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faNcbiToUcsc' cd faRenameRecords && echo faRenameRecords && make faRenameRecords make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faRenameRecords' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faRenameRecords.o -c faRenameRecords.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faRenameRecords faRenameRecords.o ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faRenameRecords make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faRenameRecords' cd faSimplify && echo faSimplify && make faSimplify make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faSimplify' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faSimplify.o -c faSimplify.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faSimplify faSimplify.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faSimplify make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faSimplify' cd faToNib && echo faToNib && make faToNib make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faToNib' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faToNib.o -c faToNib.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faToNib faToNib.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faToNib make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faToNib' cd faTrimPolyA && echo faTrimPolyA && make faTrimPolyA make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faTrimPolyA' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faTrimPolyA.o -c faTrimPolyA.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faTrimPolyA faTrimPolyA.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faTrimPolyA make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faTrimPolyA' cd faTrimRead && echo faTrimRead && make faTrimRead make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faTrimRead' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o faTrimRead.o -c faTrimRead.c faTrimRead.c: In function ‘faTrimRead’: faTrimRead.c:228:5: warning: variable ‘seqCount’ set but not used [-Wunused-but-set-variable=] 228 | int seqCount = 0; | ^~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faTrimRead faTrimRead.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/faTrimRead make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/faTrimRead' cd fixCr && echo fixCr && make fixCr make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/fixCr' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o fixCr.o -c fixCr.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fixCr fixCr.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/fixCr make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/fixCr' cd gapSplit && echo gapSplit && make gapSplit make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/gapSplit' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o gapSplit.o -c gapSplit.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gapSplit gapSplit.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gapSplit make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/gapSplit' cd gitTools && echo gitTools && make gitTools make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/gitTools' chmod a+rx gitFiles rm -f /builddir/bin/scripts/gitFiles cp -pf gitFiles /builddir/bin/scripts/gitFiles chmod a+rx gilt rm -f /builddir/bin/scripts/gilt cp -pf gilt /builddir/bin/scripts/gilt chmod a+rx gitu rm -f /builddir/bin/scripts/gitu cp -pf gitu /builddir/bin/scripts/gitu make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/gitTools' cd gffPeek && echo gffPeek && make gffPeek make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/gffPeek' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o gffPeek.o -c gffPeek.c gffPeek.c: In function ‘gffPeek’: gffPeek.c:93:5: warning: variable ‘badCount’ set but not used [-Wunused-but-set-variable=] 93 | int badCount = 0; | ^~~~~~~~ gffPeek.c:92:5: warning: variable ‘commentCount’ set but not used [-Wunused-but-set-variable=] 92 | int commentCount = 0; | ^~~~~~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gffPeek gffPeek.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/gffPeek make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/gffPeek' cd git-reports && echo git-reports && make git-reports make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/git-reports' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o git-reports.o -c git-reports.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/git-reports git-reports.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/git-reports make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/git-reports' cd htmlPics && echo htmlPics && make htmlPics make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/htmlPics' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o htmlPics.o -c htmlPics.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/htmlPics htmlPics.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/htmlPics make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/htmlPics' cd jkUniq && echo jkUniq && make jkUniq make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/jkUniq' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o jkUniq.o -c jkUniq.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/jkUniq jkUniq.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/jkUniq make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/jkUniq' cd lineCount && echo lineCount && make lineCount make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/lineCount' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o lineCount.o -c lineCount.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/lineCount lineCount.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/lineCount make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/lineCount' cd nt4Frag && echo nt4Frag && make nt4Frag make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/nt4Frag' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o nt4Frag.o -c nt4Frag.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nt4Frag nt4Frag.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/nt4Frag make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/nt4Frag' cd pslToXa && echo pslToXa && make pslToXa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslToXa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o pslToXa.o -c pslToXa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslToXa pslToXa.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/pslToXa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/pslToXa' cd scrambleFa && echo scrambleFa && make scrambleFa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/scrambleFa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o scrambleFa.o -c scrambleFa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/scrambleFa scrambleFa.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/scrambleFa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/scrambleFa' cd subs && echo subs && make subs make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/subs' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o subs.o -c subs.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/subs subs.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/subs make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/subs' cd tabToMmHash && echo tabToMmHash && make tabToMmHash make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/tabToMmHash' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tabToMmHash.o -c tabToMmHash.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabToMmHash tabToMmHash.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabToMmHash make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/tabToMmHash' cd tableSum && echo tableSum && make tableSum make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/tableSum' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tableSum.o -c tableSum.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tableSum tableSum.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tableSum make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/tableSum' cd textHist2 && echo textHist2 && make textHist2 make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/textHist2' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o textHist2.o -c textHist2.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/textHist2 textHist2.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/textHist2 make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/textHist2' cd udcCleanup && echo udcCleanup && make udcCleanup make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/udcCleanup' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o udcCleanup.o -c udcCleanup.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/udcCleanup udcCleanup.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/udcCleanup make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/udcCleanup' cd undupFa && echo undupFa && make undupFa make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/undupFa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o undupFa.o -c undupFa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/undupFa undupFa.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/undupFa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/undupFa' cd upper && echo upper && make upper make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/upper' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o upper.o -c upper.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/upper upper.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/upper make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/upper' cd vcfFilter && echo vcfFilter && make vcfFilter make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/vcfFilter' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o vcfFilter.o -c vcfFilter.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/vcfFilter vcfFilter.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/vcfFilter make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/vcfFilter' cd venn && echo venn && make venn make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/venn' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o venn.o -c venn.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/venn venn.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/venn make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/venn' cd verticalSplitSqlTable && echo verticalSplitSqlTable && make verticalSplitSqlTable make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/verticalSplitSqlTable' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o verticalSplitSqlTable.o -c verticalSplitSqlTable.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/verticalSplitSqlTable verticalSplitSqlTable.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/verticalSplitSqlTable make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/verticalSplitSqlTable' cd weedLines && echo weedLines && make weedLines make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/weedLines' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o weedLines.o -c weedLines.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/weedLines weedLines.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/weedLines make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils/weedLines' cp -p bedJoinTabOffset.py/bedJoinTabOffset.py /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin cp -p expMatrixToBarchartBed/expMatrixToBarchartBed /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin cp -p barChartMaxLimit/barChartMaxLimit /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin cp -p ucscApiClient/ucscApiClient /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin cp -p tdbRename/tdbRename /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin cp -p tdbSort/tdbSort /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin cp -p webSync/webSync /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin cp -p chromToUcsc/chromToUcsc /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin cp -p bigHeat/bigHeat /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin cp -p bigGuessDb/bigGuessDb /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/utils' make -C ameme make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/ameme' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o ameme.o -c ameme.c ameme.c: In function ‘findSeedsFragTime’: ameme.c:164:8: warning: variable ‘acc’ set but not used [-Wunused-but-set-variable=] 164 | double acc; | ^~~ ameme.c: In function ‘readSeqMaybeMakeFrame’: ameme.c:295:51: warning: ‘%s’ directive output may be truncated writing 6 bytes into a region of size between 1 and 512 [-Wformat-truncation=] 295 | snprintf(codFileName, sizeof(codFileName), "%s%s", amemeDir(), "ce.cod"); | ^~ ~~~~~~~~ In file included from /usr/include/stdio.h:974, from ../inc/common.h:30, from ameme.c:2: In function ‘snprintf’, inlined from ‘readSeqMaybeMakeFrame’ at ameme.c:295:5: /usr/include/bits/stdio2.h:68:10: note: ‘__snprintf_chk’ output between 7 and 518 bytes into a destination of size 512 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ ameme.c: In function ‘impDoMiddle’: ameme.c:2488:25: warning: ‘%s’ directive writing between 8 and 10 bytes into a region of size between 1 and 512 [-Wformat-overflow=] 2488 | sprintf(retPathName, "%s%s", dir, fileName); | ^~ In function ‘sprintf’, inlined from ‘makePremadeBgPathName’ at ameme.c:2488:1, inlined from ‘impDoMiddle’ at ameme.c:2820:9: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 9 and 522 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 ()); | ~~~~~~~~~~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o fragFind.o -c fragFind.c fragFind.c: In function ‘makeProfile’: fragFind.c:437:5: warning: variable ‘seqCount’ set but not used [-Wunused-but-set-variable=] 437 | int seqCount = 0; | ^~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ameme ameme.o fragFind.o ../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ameme make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/ameme' make -C index make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index' cd bptForTwoBit && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/bptForTwoBit' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bptForTwoBit.o -c bptForTwoBit.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bptForTwoBit bptForTwoBit.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bptForTwoBit make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/bptForTwoBit' cd bptLookupStringToBits64 && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/bptLookupStringToBits64' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bptLookupStringToBits64.o -c bptLookupStringToBits64.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bptLookupStringToBits64 bptLookupStringToBits64.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bptLookupStringToBits64 make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/bptLookupStringToBits64' cd bptMakeStringToBits64 && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/bptMakeStringToBits64' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bptMakeStringToBits64.o -c bptMakeStringToBits64.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bptMakeStringToBits64 bptMakeStringToBits64.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bptMakeStringToBits64 make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/bptMakeStringToBits64' cd indexfa && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/indexfa' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o indexfa.o -c indexfa.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/indexfa indexfa.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/indexfa make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/indexfa' cd indexgl && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/indexgl' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o indexgl.o -c indexgl.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/indexgl indexgl.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/indexgl make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/indexgl' cd ixali && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/ixali' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o ixali.o -c ixali.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ixali ixali.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ixali make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/ixali' cd ixIxx && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/ixIxx' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o ixIxx.o -c ixIxx.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ixIxx ixIxx.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ixIxx make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/ixIxx' cd ixword1 && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/ixword1' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o ixword1.o -c ixword1.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ixword1 ixword1.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ixword1 make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/ixword1' cd ixword3 && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/ixword3' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o ixword3.o -c ixword3.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ixword3 ixword3.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/ixword3 make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/ixword3' cd makepgo && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/makepgo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o makepgo.o -c makepgo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/makepgo makepgo.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/makepgo make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/makepgo' cd stToXao && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/stToXao' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o stToXao.o -c stToXao.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/stToXao stToXao.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/stToXao make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/stToXao' cd trixContextIndex && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/trixContextIndex' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o trixContextIndex.o -c trixContextIndex.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trixContextIndex trixContextIndex.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trixContextIndex make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/trixContextIndex' cd trixSearch && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/trixSearch' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o trixSearch.o -c trixSearch.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trixSearch trixSearch.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trixSearch make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/trixSearch' cd trixMultiSearch && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/trixMultiSearch' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o trixMultiSearch.o -c trixMultiSearch.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trixMultiSearch trixMultiSearch.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/trixMultiSearch make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index/trixMultiSearch' make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/index' make -C dnaDust make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/dnaDust' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o dnadust.o -c dnadust.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dnadust dnadust.o ../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/dnadust make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/dnaDust' make -C protDust make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/protDust' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o protDust.o -c protDust.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/protDust protDust.o ../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/protDust make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/protDust' make -C weblet make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/weblet' cd bottleneck && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/weblet/bottleneck' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o bottleneck.o -c bottleneck.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bottleneck bottleneck.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/bottleneck make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/weblet/bottleneck' cd counter && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/weblet/counter' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o counter.o -c counter.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/counter counter.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/counter make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/weblet/counter' cd hitreport && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/weblet/hitreport' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o hitreport.o -c hitreport.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hitreport hitreport.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/hitreport make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/weblet/hitreport' make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/weblet' make -C aladdin make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/aladdin' cd aladdin && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/aladdin/aladdin' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o aladdin.o -c aladdin.c aladdin.c: In function ‘makeMarkovModels’: aladdin.c:985:26: warning: ‘%s’ directive writing 16 bytes into a region of size between 1 and 512 [-Wformat-overflow=] 985 | sprintf(fileName, "%s%s", dir, "ceLongIntron3.fa"); | ^~ ~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:974, from ../../inc/common.h:30, from aladdin.c:2: In function ‘sprintf’, inlined from ‘makeMarkovModels’ at aladdin.c:985:5: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 17 and 528 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 ()); | ~~~~~~~~~~~~~~~~~ aladdin.c: In function ‘makeMarkovModels’: aladdin.c:987:26: warning: ‘%s’ directive writing 11 bytes into a region of size between 1 and 512 [-Wformat-overflow=] 987 | sprintf(fileName, "%s%s", dir, "cecoding.fa"); | ^~ ~~~~~~~~~~~~~ In function ‘sprintf’, inlined from ‘makeMarkovModels’ at aladdin.c:987:5: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 12 and 523 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 ()); | ~~~~~~~~~~~~~~~~~ aladdin.c: In function ‘makeMarkovModels’: aladdin.c:989:26: warning: ‘%s’ directive writing 7 bytes into a region of size between 1 and 512 [-Wformat-overflow=] 989 | sprintf(fileName, "%s%s", dir, "ceig.fa"); | ^~ ~~~~~~~~~ In function ‘sprintf’, inlined from ‘makeMarkovModels’ at aladdin.c:989:5: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 8 and 519 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 ()); | ~~~~~~~~~~~~~~~~~ aladdin.c: In function ‘makeMarkovModels’: aladdin.c:991:26: warning: ‘%s’ directive writing 7 bytes into a region of size between 1 and 512 [-Wformat-overflow=] 991 | sprintf(fileName, "%s%s", dir, "ceig.fa"); | ^~ ~~~~~~~~~ In function ‘sprintf’, inlined from ‘makeMarkovModels’ at aladdin.c:991:5: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 8 and 519 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 ()); | ~~~~~~~~~~~~~~~~~ aladdin.c: In function ‘makeMarkovModels’: aladdin.c:993:26: warning: ‘%s’ directive writing 14 bytes into a region of size between 1 and 512 [-Wformat-overflow=] 993 | sprintf(fileName, "%s%s", dir, "cepromoCons.fa"); | ^~ ~~~~~~~~~~~~~~~~ In function ‘sprintf’, inlined from ‘makeMarkovModels’ at aladdin.c:993:5: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 15 and 526 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 ()); | ~~~~~~~~~~~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/aladdin aladdin.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/aladdin make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/aladdin/aladdin' make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/aladdin' make -C primeMate make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/primeMate' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../htslib -I/usr/include/libpng16 -o primeMate.o -c primeMate.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/primeMate primeMate.o ../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/primeMate make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/primeMate' make -C fuse make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/fuse' make -C udcFuse make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/fuse/udcFuse' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o udcFuse.o -c udcFuse.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/udcFuse udcFuse.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/udcFuse make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/fuse/udcFuse' make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/fuse' make -C meta make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/meta' cd metaFlatten && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/meta/metaFlatten' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o metaFlatten.o -c metaFlatten.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/metaFlatten metaFlatten.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/metaFlatten make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/meta/metaFlatten' cd metaHoist && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/meta/metaHoist' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o metaHoist.o -c metaHoist.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/metaHoist metaHoist.o ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/metaHoist make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/meta/metaHoist' cd metaReformat && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/meta/metaReformat' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o metaReformat.o -c metaReformat.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/metaReformat metaReformat.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl -lm true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/metaReformat make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/meta/metaReformat' make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/meta' make -C tagStorm make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm' make buildUtils make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm' cd tagStormHoist && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormHoist' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormHoist.o -c tagStormHoist.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormHoist tagStormHoist.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormHoist make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormHoist' cd tagStormReformat && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormReformat' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormReformat.o -c tagStormReformat.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormReformat tagStormReformat.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormReformat make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormReformat' cd tagStormFromTab && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormFromTab' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormFromTab.o -c tagStormFromTab.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormFromTab tagStormFromTab.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormFromTab make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormFromTab' cd jsonToTagStorm && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/jsonToTagStorm' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o jsonToTagStorm.o -c jsonToTagStorm.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/jsonToTagStorm jsonToTagStorm.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/jsonToTagStorm make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/jsonToTagStorm' cd tagStormInfo && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormInfo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormInfo.o -c tagStormInfo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormInfo tagStormInfo.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormInfo make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormInfo' cd tagStormJoinTab && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormJoinTab' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormJoinTab.o -c tagStormJoinTab.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormJoinTab tagStormJoinTab.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormJoinTab make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormJoinTab' cd tagStormToHtml && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormToHtml' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormToHtml.o -c tagStormToHtml.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormToHtml tagStormToHtml.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormToHtml make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormToHtml' cd tagStormToJson && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormToJson' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormToJson.o -c tagStormToJson.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormToJson tagStormToJson.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormToJson make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormToJson' cd tagStormDeleteTags && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormDeleteTags' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormDeleteTags.o -c tagStormDeleteTags.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormDeleteTags tagStormDeleteTags.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormDeleteTags make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormDeleteTags' cd tagStormRenameTags && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormRenameTags' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormRenameTags.o -c tagStormRenameTags.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormRenameTags tagStormRenameTags.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormRenameTags make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormRenameTags' cd tagStormRenameVals && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormRenameVals' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormRenameVals.o -c tagStormRenameVals.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormRenameVals tagStormRenameVals.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormRenameVals make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormRenameVals' cd tagStormToCsv && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormToCsv' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormToCsv.o -c tagStormToCsv.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormToCsv tagStormToCsv.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormToCsv make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormToCsv' cd tagStormToTab && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormToTab' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormToTab.o -c tagStormToTab.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormToTab tagStormToTab.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormToTab make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormToTab' cd tagStormToSql && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormToSql' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormToSql.o -c tagStormToSql.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormToSql tagStormToSql.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormToSql make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormToSql' cd tagStormCheck && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormCheck' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormCheck.o -c tagStormCheck.c tagStormCheck.c: In function ‘tagStormCheck’: tagStormCheck.c:323:5: warning: variable ‘schemaSize’ set but not used [-Wunused-but-set-variable=] 323 | int schemaSize = 0; | ^~~~~~~~~~ gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormCheck tagStormCheck.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormCheck make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormCheck' cd tagStormArrayToCsv && make make[4]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormArrayToCsv' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tagStormArrayToCsv.o -c tagStormArrayToCsv.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormArrayToCsv tagStormArrayToCsv.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tagStormArrayToCsv make[4]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm/tagStormArrayToCsv' make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm' make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tagStorm' make -C tabFile make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tabFile' cd tabInfo && echo tabInfo && make tabInfo make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tabFile/tabInfo' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tabInfo.o -c tabInfo.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabInfo tabInfo.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabInfo make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tabFile/tabInfo' cd tabQuery && echo tabQuery && make tabQuery make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tabFile/tabQuery' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tabQuery.o -c tabQuery.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabQuery tabQuery.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabQuery make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tabFile/tabQuery' cd tabRepeatedFieldsToArrayField && echo tabRepeatedFieldsToArrayField && make tabRepeatedFieldsToArrayField make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tabFile/tabRepeatedFieldsToArrayField' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tabRepeatedFieldsToArrayField.o -c tabRepeatedFieldsToArrayField.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabRepeatedFieldsToArrayField tabRepeatedFieldsToArrayField.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabRepeatedFieldsToArrayField make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tabFile/tabRepeatedFieldsToArrayField' cd tabToHtml && echo tabToHtml && make tabToHtml make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tabFile/tabToHtml' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tabToHtml.o -c tabToHtml.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabToHtml tabToHtml.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabToHtml make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tabFile/tabToHtml' cd tabToTabDir && echo tabToTabDir && make tabToTabDir make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tabFile/tabToTabDir' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o tabToTabDir.o -c tabToTabDir.c gcc -O -g -o /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabToTabDir tabToTabDir.o ../../lib/aarch64/jkweb.a -lmariadb -lz -lpthread -lm -lssl -lcrypto -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin/tabToTabDir make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tabFile/tabToTabDir' make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/tabFile' make -C parasol make[2]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol' mkdir -p bin cd lib && make make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/lib' mkdir -p aarch64 ar rcu aarch64/paralib.a broadData.o paraLib.o paraMessage.o machSpec.o jobResult.o ranlib aarch64/paralib.a make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/lib' cd gensub2 && echo gensub2 && make gensub2 make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/gensub2' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o gensub2.o -c gensub2.c mkdir -p ../bin gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o ../bin/gensub2 gensub2.o ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true ../bin/gensub2 make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/gensub2' cd para && echo para && make para make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/para' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o para.o -c para.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o jobDb.o -c jobDb.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o ../bin/para para.o jobDb.o ../lib/aarch64/paralib.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true ../bin/para make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/para' cd paraHub && echo paraHub && make paraHub make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraHub' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o paraHub.o -c paraHub.c paraHub.c: In function ‘startHub’: paraHub.c:3399:8: warning: ignoring return value of ‘nice’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 3399 | (void) nice(-40); // ignore return value | ^~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o spoke.o -c spoke.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o heartbeat.o -c heartbeat.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o queue.o -c queue.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o sockSuck.o -c sockSuck.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -ggdb -o ../bin/paraHub paraHub.o spoke.o heartbeat.o queue.o sockSuck.o ../lib/aarch64/paralib.a ../../lib/aarch64/jkweb.a -lpthread -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraHub' cd paraHubStop && echo paraHubStop && make paraHubStop make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraHubStop' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o paraHubStop.o -c paraHubStop.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o ../bin/paraHubStop paraHubStop.o ../lib/aarch64/paralib.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true ../bin/paraHubStop make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraHubStop' cd paraNode && echo paraNode && make paraNode make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraNode' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o paraNode.o -c paraNode.c mkdir -p ../bin gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o ../bin/paraNode paraNode.o ../lib/aarch64/paralib.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true ../bin/paraNode make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraNode' cd paraNodeStart && echo paraNodeStart && make paraNodeStart make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraNodeStart' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o paraNodeStart.o -c paraNodeStart.c paraNodeStart.c: In function ‘paraNodeStart’: paraNodeStart.c:100:12: warning: ignoring return value of ‘system’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 100 | (void) system(dy->string); // ignore return value | ^~~~~~~~~~~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o ../bin/paraNodeStart paraNodeStart.o ../lib/aarch64/paralib.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true ../bin/paraNodeStart make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraNodeStart' cd paraNodeStatus && echo paraNodeStatus && make paraNodeStatus make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraNodeStatus' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o paraNodeStatus.o -c paraNodeStatus.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o ../bin/paraNodeStatus paraNodeStatus.o ../lib/aarch64/paralib.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true ../bin/paraNodeStatus make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraNodeStatus' cd paraNodeStop && echo paraNodeStop && make paraNodeStop make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraNodeStop' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o paraNodeStop.o -c paraNodeStop.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o ../bin/paraNodeStop paraNodeStop.o ../lib/aarch64/paralib.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true ../bin/paraNodeStop chmod 744 ../bin/paraNodeStop make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraNodeStop' cd paraTestJob && echo paraTestJob && make paraTestJob make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraTestJob' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o paraTestJob.o -c paraTestJob.c gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o ../bin/paraTestJob paraTestJob.o ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true ../bin/paraTestJob make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/paraTestJob' cd parasol && echo parasol && make parasol make[3]: Entering directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/parasol' gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_aarch64 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc -I../../htslib -I/usr/include/libpng16 -o parasol.o -c parasol.c parasol.c: In function ‘getResultsFile’: parasol.c:108:8: warning: ignoring return value of ‘getcwd’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 108 | (void) getcwd(curDir, sizeof(curDir)); // ignore return value | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ parasol.c: In function ‘addJob’: parasol.c:268:8: warning: ignoring return value of ‘getcwd’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 268 | (void) getcwd(curDir, sizeof(curDir)); // ignore return value | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -O -g -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -std=c99 -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -o ../bin/parasol parasol.o ../lib/aarch64/paralib.a ../../lib/aarch64/jkweb.a -lpthread -lssl -lcrypto ../../htslib/libhts.a -L/usr/lib64 -lpng16 -lz -lbz2 -ldl -lm -lc -lcurl true ../bin/parasol make[3]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol/parasol' make[2]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src/parasol' make[1]: Leaving directory '/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/src' + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.ZLMCF7 + umask 022 + cd /builddir/build/BUILD/ucsc-kent-utils-492-build + '[' /builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT '!=' / ']' + rm -rf /builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT ++ dirname /builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT + mkdir -p /builddir/build/BUILD/ucsc-kent-utils-492-build + mkdir /builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd kent-core-492 + mkdir -p /builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT/usr/bin + install -m 0755 bin/aNotB bin/aarToAxt bin/addAveMedScoreToPsls bin/addCols bin/affyPairsToSample bin/agpAllToFaFile bin/agpCloneCheck bin/agpCloneList bin/agpMergeChromScaf bin/agpToFa bin/agpToGl bin/agxToBed bin/agxToIntronBeds bin/agxToTxg bin/aladdin bin/allenCollectSeq bin/altAnalysis bin/altPaths bin/altSplice bin/altSummary bin/ameme bin/apacheMonitor bin/assessLibs bin/autoDtd bin/autoSql bin/autoXml bin/ave bin/aveCols bin/averagExp bin/averageZoomLevels bin/avgTranscriptomeExps bin/axtAndBed bin/axtBest bin/axtCalcMatrix bin/axtChain bin/axtDropOverlap bin/axtDropSelf bin/axtFilter bin/axtForEst bin/axtIndex bin/axtPretty bin/axtQueryCount bin/axtRecipBest bin/axtRescore bin/axtSort bin/axtSplitByTarget bin/axtSwap bin/axtToBed bin/axtToChain bin/axtToMaf bin/axtToPsl bin/bamToPsl bin/barChartMaxLimit bin/bedClip bin/bedCommonRegions bin/bedCons bin/bedCoverage bin/bedDown bin/bedExtendRanges bin/bedGeneParts bin/bedGraphPack bin/bedGraphToBigWig bin/bedInGraph bin/bedIntersect bin/bedItemOverlapCount bin/bedJoinTabOffset bin/bedJoinTabOffset.py bin/bedMergeAdjacent bin/bedOrBlocks bin/bedPartition bin/bedPileUps bin/bedRemoveOverlap bin/bedRestrictToPositions bin/bedSort bin/bedSplitOnChrom bin/bedToBigBed bin/bedToExons bin/bedToFrames bin/bedToGenePred bin/bedToPsl bin/bedToTxEdges bin/bedUp bin/bedWeedOverlapping bin/bigBedInfo bin/bigBedNamedItems bin/bigBedSummary bin/bigBedToBed bin/bigChainBreaks bin/bigChainToChain bin/bigGenePredToGenePred bin/bigGuessDb bin/bigHeat bin/bigMafToMaf bin/bigPslToPsl bin/bigWigAverageOverBed bin/bigWigCat bin/bigWigCluster bin/bigWigCorrelate bin/bigWigInfo bin/bigWigMerge bin/bigWigSummary bin/bigWigToBedGraph bin/bigWigToWig bin/binFromRange bin/blastToPsl bin/blastXmlToPsl bin/borfBig bin/bottleneck bin/bptForTwoBit bin/bptLookupStringToBits64 bin/bptMakeStringToBits64 bin/buildReleaseLog bin/calc bin/calcGap bin/catDir bin/catUncomment bin/ccCp bin/chainAntiRepeat bin/chainCleaner bin/chainDbToFile bin/chainFilter bin/chainMergeSort bin/chainNet bin/chainPreNet bin/chainScore bin/chainSort bin/chainSplit bin/chainStitchId bin/chainSwap bin/chainToAxt bin/chainToBigChain bin/chainToPsl bin/chainToPslBasic bin/checkAgpAndFa bin/checkBigDbSnp bin/checkCardinality bin/checkChain bin/checkCoverageGaps bin/checkSgdSync bin/checkTableCoords bin/checkUrlsInTable bin/checkableBorf bin/chopFaLines bin/chromGraphFromBin bin/chromGraphToBin bin/chromToUcsc bin/clusterGenes bin/clusterMatrixToBarChartBed bin/clusterPsl bin/clusterRna bin/colTransform bin/consForBed bin/convolve bin/countChars bin/countNib bin/counter bin/cpg_lh bin/crTreeIndexBed bin/crTreeSearchBed bin/createSageSummary bin/ctgFaToFa bin/ctgToChromFa bin/dbDbToHubTxt bin/dbFindFieldsWith bin/dbSnoop bin/dbSnpJsonToTab bin/dbTrash bin/detab bin/dnaMotifFind bin/dnadust bin/dnsInfo bin/dumpNib bin/eisenInput bin/emblMatrixToMotif bin/embossToPsl bin/endsInLf bin/estLibStats bin/estOrient bin/exonerateGffDoctor bin/expMatrixToBarchartBed bin/expToRna bin/faAlign bin/faCmp bin/faCount bin/faFilter bin/faFilterN bin/faFlyBaseToUcsc bin/faFrag bin/faGapLocs bin/faGapSizes bin/faNcbiToUcsc bin/faNoise bin/faOneRecord bin/faPolyASizes bin/faRandomize bin/faRc bin/faRenameRecords bin/faSimplify bin/faSize bin/faSomeRecords bin/faSplit bin/faToFastq bin/faToNib bin/faToTab bin/faToTwoBit bin/faToVcf bin/faTrans bin/faTrimPolyA bin/faTrimRead bin/fakeFinContigs bin/fakeOut bin/fastqStatsAndSubsample bin/fastqToFa bin/featureBits bin/ffaToFa bin/findMotif bin/findStanAlignments bin/fishClones bin/fixCr bin/fixHarbisonMotifs bin/fixStepToBedGraph.pl bin/fixTrackDb bin/fqToQa bin/fqToQac bin/fragPart bin/gapSplit bin/gapToLift bin/gbGetEntries bin/gbOneAcc bin/gbSeqCheck bin/gbToFaRa bin/gcForBed bin/gencodeVersionForGenes bin/genePredCheck bin/genePredFilter bin/genePredHisto bin/genePredSingleCover bin/genePredToBed bin/genePredToBigGenePred bin/genePredToFakePsl bin/genePredToGtf bin/genePredToMafFrames bin/genePredToProt bin/genePredToPsl bin/geoMirrorNode bin/getChroms bin/getFeatDna bin/getRna bin/getRnaPred bin/gff3ToGenePred bin/gff3ToPsl bin/gffPeek bin/git-reports bin/gmtime bin/gpStats bin/gpToGtf bin/gpcrParser bin/groupSamples bin/gsBig bin/gtfToGenePred bin/hapmapPhaseIIISummary bin/headRest bin/hgAddLiftOverChain bin/hgAvidShortBed bin/hgBbiDbLink bin/hgBioCyc bin/hgCGAP bin/hgChroms bin/hgClonePos bin/hgCountAlign bin/hgCtgPos bin/hgDeleteChrom bin/hgDropSplitTable bin/hgExonerate bin/hgExperiment bin/hgExtFileCheck bin/hgFakeAgp bin/hgFiberglass bin/hgFindSpec bin/hgFlyBase bin/hgGcPercent bin/hgGeneBands bin/hgGenericMicroarray bin/hgGetAnn bin/hgGnfMicroarray bin/hgGoldGapGl bin/hgGtex bin/hgGtexAse bin/hgGtexExonBed bin/hgGtexGeneBed bin/hgJaxQtl bin/hgKegg bin/hgKegg2 bin/hgKegg3 bin/hgKgGetText bin/hgKgMrna bin/hgKnownGeneList bin/hgKnownMore bin/hgLoadBed bin/hgLoadBlastTab bin/hgLoadChain bin/hgLoadChromGraph bin/hgLoadEranModules bin/hgLoadGap bin/hgLoadGenePred bin/hgLoadItemAttr bin/hgLoadMaf bin/hgLoadMafFrames bin/hgLoadMafSummary bin/hgLoadNet bin/hgLoadOut bin/hgLoadOutJoined bin/hgLoadPsl bin/hgLoadRnaFold bin/hgLoadSample bin/hgLoadSeq bin/hgLoadSqlTab bin/hgLoadWiggle bin/hgLsSnpPdbLoad bin/hgMapMicroarray bin/hgMedianMicroarray bin/hgMrnaRefseq bin/hgNibSeq bin/hgPar bin/hgPepPred bin/hgPhMouse bin/hgRatioMicroarray bin/hgRenameSplitTable bin/hgRnaGenes bin/hgSanger20 bin/hgSanger22 bin/hgSelect bin/hgSgdGff3 bin/hgSgdGfp bin/hgSgdPep bin/hgSoftPromoter bin/hgSoftberryHom bin/hgSpeciesRna bin/hgStanfordMicroarray bin/hgStsAlias bin/hgStsMarkers bin/hgSuperfam bin/hgTomRough bin/hgTpf bin/hgTraceInfo bin/hgTrackDb bin/hgTracksRandom bin/hgWaba bin/hgWiggle bin/hgYeastRegCode bin/hgsql bin/hgsqlSwapTables bin/hgsqlTableDate bin/hgsqladmin bin/hgsqldump bin/hgsqlimport bin/hgvsToVcf bin/hicInfo bin/hitreport bin/htmlCheck bin/htmlPics bin/hubCheck bin/hubClone bin/hubCrawl bin/hubPublicCheck bin/indexfa bin/indexgl bin/intronEnds bin/iriToControlTable bin/iriToDnaMotif bin/ixIxx bin/ixali bin/ixword1 bin/ixword3 bin/jkUniq bin/joinableFields bin/joinerCheck bin/joinerRoute bin/jsonToTagStorm bin/knownVsBlat bin/kvsSummary bin/lavToAxt bin/lavToPsl bin/ldHgGene bin/lfsOverlap bin/libScan bin/liftAcross bin/liftAgp bin/liftFrags bin/liftPromoHits bin/liftUp bin/lineCount bin/linesToRa bin/localtime bin/mafAddIRows bin/mafAddQRows bin/mafCoverage bin/mafFetch bin/mafFilter bin/mafFrag bin/mafFrags bin/mafGene bin/mafMeFirst bin/mafNoAlign bin/mafOrder bin/mafRanges bin/mafSpeciesList bin/mafSpeciesSubset bin/mafSplit bin/mafSplitPos bin/mafToAxt bin/mafToBigMaf bin/mafToPsl bin/mafToSnpBed bin/mafsInRegion bin/makeTableDescriptions bin/makeTableList bin/makeTrackIndex bin/makepgo bin/maskOutFa bin/matrixClusterColumns bin/matrixMarketToTsv bin/matrixNormalize bin/matrixToBarChartBed bin/maxTranscriptomeExps bin/mdToNcbiLift bin/mdbPrint bin/mdbUpdate bin/metaFlatten bin/metaHoist bin/metaReformat bin/mgcFastaForBed bin/mktime bin/motifLogo bin/motifSig bin/mousePoster bin/mrnaToGene bin/mysqlSecurityCheck bin/netChainSubset bin/netClass bin/netFilter bin/netSplit bin/netStats bin/netSyntenic bin/netToAxt bin/netToBed bin/netToBedWithId bin/newProg bin/newPythonProg bin/nibFrag bin/nibSize bin/nibbImageProbes bin/nibbNameFix bin/nibbParseImageDir bin/nibbPrepImages bin/normalizeSampleFile bin/nt4Frag bin/oligoMatch bin/orf bin/orfStats bin/orthoEvaluate bin/orthoMap bin/orthoPickIntron bin/orthoSplice bin/orthologBySynteny bin/overlapSelect bin/paraFetch bin/paraSync bin/patCount bin/phToPsl bin/phyloRenameAndPrune bin/polyInfo bin/positionalTblCheck bin/primeMate bin/promoSeqFromCluster bin/protDust bin/pslCDnaFilter bin/pslCat bin/pslCheck bin/pslCoverage bin/pslDiff bin/pslDropOverlap bin/pslFilter bin/pslFilterPrimers bin/pslFixCdsJoinGap bin/pslGlue bin/pslHisto bin/pslHitPercent bin/pslIntronsOnly bin/pslLiftSubrangeBlat bin/pslMap bin/pslMapPostChain bin/pslMismatchGapToBed bin/pslMrnaCover bin/pslPairs bin/pslPartition bin/pslPosTarget bin/pslPretty bin/pslProtToRnaCoords bin/pslQuickFilter bin/pslRc bin/pslRecalcMatch bin/pslRemoveFrameShifts bin/pslReps bin/pslScore bin/pslSelect bin/pslSimp bin/pslSomeRecords bin/pslSort bin/pslSortAcc bin/pslSpliceJunctions bin/pslSplitOnTarget bin/pslStats bin/pslSwap bin/pslToBed bin/pslToBigPsl bin/pslToChain bin/pslToPslx bin/pslToXa bin/pslUniq bin/pslUnpile bin/pslxToFa bin/qaToQac bin/qacAgpLift bin/qacToQa bin/qacToWig bin/raSqlQuery bin/raToCds bin/raToLines bin/raToTab bin/randomLines bin/refSeqGet bin/refreshNamedSessionCustomTracks bin/regionPicker bin/relPairs bin/reviewIndexes bin/rikenBestInCluster bin/rmFaDups bin/rmskAlignToPsl bin/rnaFoldBig bin/rowsToCols bin/safePush bin/samHit bin/sanger22gtf bin/scaffoldFaToAgp bin/scaleSampleFiles bin/scanRa bin/scrambleFa bin/semiNorm bin/seqCheck bin/sequenceForBed bin/sim4big bin/simpleChain bin/sizeof bin/snpException bin/snpMaskAddInsertions bin/snpMaskCutDeletions bin/snpMaskSingle bin/snpNcbiToUcsc bin/snpValid bin/spacedToTab bin/spideyToPsl bin/splitFa bin/splitFaIntoContigs bin/splitFile bin/splitFileByColumn bin/splitSim bin/sqlToXml bin/stToXao bin/stageMultiz bin/stanToBedAndExpRecs bin/strexCalc bin/stringify bin/subChar bin/subColumn bin/subs bin/subsetAxt bin/subsetTraces bin/tabFmt bin/tabInfo bin/tabQuery bin/tabRepeatedFieldsToArrayField bin/tabToHtml bin/tabToMmHash bin/tabToTabDir bin/tableSum bin/tagStormArrayToCsv bin/tagStormCheck bin/tagStormDeleteTags bin/tagStormFromTab bin/tagStormHoist bin/tagStormInfo bin/tagStormJoinTab bin/tagStormReformat bin/tagStormRenameTags bin/tagStormRenameVals bin/tagStormToCsv bin/tagStormToHtml bin/tagStormToJson bin/tagStormToSql bin/tagStormToTab bin/tailLines bin/tdbQuery bin/tdbRename bin/tdbSort bin/testSearch bin/textHist2 bin/textHistogram bin/tfbsConsLoc bin/tfbsConsSort bin/tickToDate bin/timePosTable bin/toDev64 bin/toLower bin/toUpper bin/trackDbIndexBb bin/trackDbPatch bin/trackDbRaFormat bin/trackDbToTxt bin/trackOverlap bin/transMapPslToGenePred bin/trfBig bin/trixContextIndex bin/trixMultiSearch bin/trixSearch bin/twinOrf bin/twinOrf2 bin/twinOrf3 bin/twinOrfStats bin/twinOrfStats2 bin/twinOrfStats3 bin/twoBitDup bin/twoBitInfo bin/twoBitMask bin/twoBitToFa bin/txAbFragFind bin/txBedToGraph bin/txCdsBadBed bin/txCdsCluster bin/txCdsEvFromBed bin/txCdsEvFromBorf bin/txCdsEvFromProtein bin/txCdsEvFromRna bin/txCdsGoodBed bin/txCdsOrfInfo bin/txCdsOrtho bin/txCdsPick bin/txCdsPredict bin/txCdsRaExceptions bin/txCdsRefBestEvOnly bin/txCdsRepick bin/txCdsSuspect bin/txCdsSvmInput bin/txCdsToGene bin/txCdsWeed bin/txGeneAccession bin/txGeneAlias bin/txGeneAltProt bin/txGeneCanonical bin/txGeneCdsMap bin/txGeneColor bin/txGeneExplainUpdate1 bin/txGeneFromBed bin/txGeneProtAndRna bin/txGeneSeparateNoncoding bin/txGeneXref bin/txInfoAssemble bin/txOrtho bin/txPslFilter bin/txPslToBed bin/txReadRa bin/txWalk bin/txgAddEvidence bin/txgAnalyze bin/txgGoodEdges bin/txgToAgx bin/txgToXml bin/txgTrim bin/ucscApiClient bin/udcCleanup bin/udcFuse bin/undupFa bin/uniqSize bin/updateStsInfo bin/upper bin/utrFa bin/varStepToBedGraph.pl bin/vcfFilter bin/vcfRenameAndPrune bin/vcfToBed bin/vcfToHgvs bin/vegaBuildInfo bin/venn bin/verticalSplitSqlTable bin/webSync bin/weedLines bin/whyConserved bin/wigBedToStep bin/wigCorrelate bin/wigEncode bin/wigToBigWig bin/wordLine bin/xmlCat bin/xmlToSql /builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT/usr/bin/ + find /builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT/usr/bin -type f + xargs grep -lE '^#!.*python' + xargs sed -i '1s|#!.*python.*|#!/usr/bin/python3|' + find /builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT/usr/bin -type f + xargs grep -lE '^#!.*perl' + xargs sed -i '1s|#!.*perl|#!/usr/bin/perl|' + /usr/bin/find-debuginfo -j4 --strict-build-id -m -i --build-id-seed 492-1.fc46 --unique-debug-suffix -492-1.fc46.aarch64 --unique-debug-src-base ucsc-kent-utils-492-1.fc46.aarch64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 --remove-section .gnu.build.attributes -S debugsourcefiles.list /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492 find-debuginfo: starting Extracting debug info from 690 files DWARF-compressing 690 files sepdebugcrcfix: Updated 690 CRC32s, 0 CRC32s did match. Creating .debug symlinks for symlinks to ELF files Copying sources found by 'debugedit -l' to /usr/src/debug/ucsc-kent-utils-492-1.fc46.aarch64 find-debuginfo: done + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + COMPRESS='gzip -9 -n' + COMPRESS_EXT=.gz + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/check-rpaths + /usr/lib/rpm/redhat/brp-mangle-shebangs + /usr/lib/rpm/brp-remove-la-files + /usr/lib/rpm/redhat/brp-python-rpm-in-distinfo + env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j4 + /usr/lib/rpm/redhat/brp-python-hardlink + /usr/bin/add-det --brp -j4 /builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT Scanned 701 directories and 2970 files, processed 0 inodes, 0 modified (0 replaced + 0 rewritten), 0 unsupported format, 0 errors + /usr/bin/linkdupes --brp /builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT/usr Scanned 700 directories and 2970 files, considered 2970 files, read 604 files, linked 0 files, 0 errors sum of sizes of linked files: 0 bytes Reading /builddir/build/BUILD/ucsc-kent-utils-492-build/SPECPARTS/rpm-debuginfo.specpart Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.aY64dr + umask 022 + cd /builddir/build/BUILD/ucsc-kent-utils-492-build + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd kent-core-492 ++ uname -m ++ sed 's/-.*//' + export MACHTYPE=aarch64 + MACHTYPE=aarch64 ++ pwd + export BINDIR=/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin + BINDIR=/builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/bin + RPM_EC=0 ++ jobs -p + exit 0 Processing files: ucsc-kent-utils-492-1.fc46.aarch64 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.hHoztM + umask 022 + cd /builddir/build/BUILD/ucsc-kent-utils-492-build + cd kent-core-492 + LICENSEDIR=/builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT/usr/share/licenses/ucsc-kent-utils + export LC_ALL=C.UTF-8 + LC_ALL=C.UTF-8 + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT/usr/share/licenses/ucsc-kent-utils + cp -pr /builddir/build/BUILD/ucsc-kent-utils-492-build/kent-core-492/LICENSE /builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT/usr/share/licenses/ucsc-kent-utils + RPM_EC=0 ++ jobs -p + exit 0 Provides: ucsc-kent-utils = 492-1.fc46 ucsc-kent-utils(aarch-64) = 492-1.fc46 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/awk /usr/bin/perl /usr/bin/python3 ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libbz2.so.1()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.28)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.38)(64bit) libcrypto.so.4()(64bit) libcrypto.so.4(OPENSSL_4.0.0)(64bit) libcurl.so.4()(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.17)(64bit) libm.so.6(GLIBC_2.29)(64bit) libm.so.6(GLIBC_2.43)(64bit) libmariadb.so.3()(64bit) libmariadb.so.3(libmysqlclient_18)(64bit) libpng16.so.16()(64bit) libpng16.so.16(PNG16_0)(64bit) libresolv.so.2()(64bit) libssl.so.4()(64bit) libssl.so.4(OPENSSL_4.0.0)(64bit) libz.so.1()(64bit) libz.so.1(ZLIB_1.2.0)(64bit) rtld(GNU_HASH) Processing files: ucsc-kent-utils-debugsource-492-1.fc46.aarch64 Provides: ucsc-kent-utils-debugsource = 492-1.fc46 ucsc-kent-utils-debugsource(aarch-64) = 492-1.fc46 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: ucsc-kent-utils-debuginfo-492-1.fc46.aarch64 Provides: debuginfo(build-id) = 006ddd8575ff58ae0dc09a347b15b0bcc36c5714 debuginfo(build-id) = 010cae39ae1c80e7303a24183134334b3d1e0531 debuginfo(build-id) = 012017aaa2f32da73837e5de1f8b70a8f687fc87 debuginfo(build-id) = 03410d4f0d580b319dd586b1804ed38e1818813c debuginfo(build-id) = 0372759218f8e10fa1e00a52b2013c097d0e7ba7 debuginfo(build-id) = 0444dcc718c1f86f5c0c97e810db7eb2a4120f82 debuginfo(build-id) = 04c2c4e9b2147bcc16913181339c17d8da45c34b debuginfo(build-id) = 0598b9ab4203020700ba99380896f2d099e78311 debuginfo(build-id) = 05a028c6786239c8c38f36458edd9a4dbf379a59 debuginfo(build-id) = 05a5696ea286bd499bd0d5ac93fe859641432692 debuginfo(build-id) = 072509e11d75d038f353343520851c42faeae4ee debuginfo(build-id) = 0734c25c9afbc34c78a56090f6b9afe47e88480c debuginfo(build-id) = 079bfcfe139d87ba323c491e2e9e578763e66703 debuginfo(build-id) = 07e64e90bda3a1106cc4043b52a0eeaf0e4d6422 debuginfo(build-id) = 07e747966fd180452b37565bb0d5190d283671d5 debuginfo(build-id) = 080488a331961d03fed016f0a6520b07fa1dbd9a debuginfo(build-id) = 091d96853717e635a3292f8a811f0b2136790aaf debuginfo(build-id) = 09486edb55b669c05b5c835790f9b7f9d7e64a27 debuginfo(build-id) = 0968a611bc174f19da137502bdcce97b95129719 debuginfo(build-id) = 0a1b9b6cdb9f1dc3de824f230eecac6debc8adfa debuginfo(build-id) = 0a2536acf0111eb11dbdae7734b7c42fe36e2156 debuginfo(build-id) = 0a64ec35fecbac6e464327de70c883c96f0a792c debuginfo(build-id) = 0b773244986efe830b245a9a2e6f79d8218b4234 debuginfo(build-id) = 0ba2d35f024eab02fce85519d30e326ad71b9f0c debuginfo(build-id) = 0bb114d88e29d09664c40062d53a191ae52754d3 debuginfo(build-id) = 0bdc8c87cee2b951f5c29d175005d6121ea43fe8 debuginfo(build-id) = 0bfb2273cf04f33fb949882bc96028221043868d debuginfo(build-id) = 0c3142ea0041fb3c6627c5c9bd0bf96e0608a034 debuginfo(build-id) = 0c6149513201a757168ac31b10d44cae57c9dc43 debuginfo(build-id) = 0c80250ee13c404e1bb253418449f663a2fc5ac5 debuginfo(build-id) = 0d26532f6b1eac7f653327d6d2bd3e3a1753d644 debuginfo(build-id) = 0e5ee7d1ae6c83e8dc1defe2bc8e2f3f19205769 debuginfo(build-id) = 0e70ba3bb0672e49c8d9597f083c8f667e54ba36 debuginfo(build-id) = 0e8d0caf37c6fc47b2b53f88363e47a5f1c8e80c debuginfo(build-id) = 0f7d7a163e556bcd90967df87adaa6054fe9282e debuginfo(build-id) = 0fafe7402b9fba415c52aac398a35169e69ee9f8 debuginfo(build-id) = 10577803f6830b53b41e39cf11eaac34fcc902de debuginfo(build-id) = 10aa9c9aaa26b7c7ab5c834fc86a28f52e065e69 debuginfo(build-id) = 10b8a75cafd88dc3542ac6ccfe112a35690fa72b debuginfo(build-id) = 10d5568c1b8a1880b7b37f062bfed0c9a72072a3 debuginfo(build-id) = 10eaac4a619e2e31f7bf39cb4a9c98e13f99cad8 debuginfo(build-id) = 116b899ac9778e523edbd52805d575e5d9474994 debuginfo(build-id) = 1296c2aaa7dc5af9ec104d3def834240de61eff9 debuginfo(build-id) = 12be9954a88091b46c5871f355495f16fca794c2 debuginfo(build-id) = 13382a8f18f5b182501adcfc1de3972eaf2e6b0d debuginfo(build-id) = 1343a89c7e42986d709c7078e10566f9134b2c40 debuginfo(build-id) = 13b86bc99276be1af47e1312fadc693484d51d53 debuginfo(build-id) = 13e7f62faf1f67e528779812e6431a7ce723de4f debuginfo(build-id) = 14860b2df275fdac0245e37c7be870aad2ff95c9 debuginfo(build-id) = 15126714690c44b18c436e110eaee2c6b11bd062 debuginfo(build-id) = 15f2e7a043bb0f8171681fd9a9ab6194681ca21a debuginfo(build-id) = 16723b9a6e1e0426732eb0a8e8a3ef9e0ef77549 debuginfo(build-id) = 168f0a9961d5d5165ea727e5857017eab354b165 debuginfo(build-id) = 16dc1663c48a2ec2671b5ab4ea5efde9b4d6fcfc debuginfo(build-id) = 170c287f40197974a3365cb24bb05b38507d85b9 debuginfo(build-id) = 170ce103ccd9bef19a16498c4f04b27cc36fb5bb debuginfo(build-id) = 1771bae52d8a615bf2b22c5e15b1791260c8ed18 debuginfo(build-id) = 17900e9fcd240745d5aa93f17ac62c9024ec6657 debuginfo(build-id) = 18fdb0eae0c554442e0e659aa73fef7d4298feeb debuginfo(build-id) = 19b83553e19a7a29f779c6403dba7460a180a22f debuginfo(build-id) = 19eb3cf58acf742c1742d5aa3415c51cecc2d023 debuginfo(build-id) = 1a29d5f84cba44dab088a12b822e4d7c77f3579b debuginfo(build-id) = 1b1183d52e1013319c6ec206e9d7a4ab98e526c4 debuginfo(build-id) = 1c526b5f6e199df86d7cbc35ad3b1d1b0d02add9 debuginfo(build-id) = 1d82d2609f287254351e4d2271538def12cf6b3e debuginfo(build-id) = 1ee3550d50d8d18e5846d13ae7824bbf6b640574 debuginfo(build-id) = 1f2d9fd27cc1260e59f41b43d1a3e06ecc68a86e debuginfo(build-id) = 1f4f604bf17f2174c66fcb7216489e7f7e6ab1b5 debuginfo(build-id) = 1fa23448c0786fdfd28348f9cb37116d45924bcb debuginfo(build-id) = 1fefc1aac0e6d4f39d9c42b02ab39a160d3881dd debuginfo(build-id) = 2031a6c119e91e2cf47683b79cab3e55d117ac87 debuginfo(build-id) = 2047d5cf4cb04db699523bab647d8008a77cf9b5 debuginfo(build-id) = 20681c1e611af872563067ba3658ea92065a6c7e debuginfo(build-id) = 2078c9b94491955caf6f3be9ac6ce1294c04ffec debuginfo(build-id) = 20d37282fc3bc25ee6013a9d1a286d0ba86cd784 debuginfo(build-id) = 21ba20bfd5f541adc6e9abbfb2adcb631f1a37c6 debuginfo(build-id) = 21f42ef39772e7b947db273dc7729af11a47fcfd debuginfo(build-id) = 228ce551e9ccd3b198e7d1564cd8b3987d439459 debuginfo(build-id) = 22c975509b68603b1a86d3b976134a3007548d84 debuginfo(build-id) = 23465676f8ddf3feb14aec4a6e23bced43161748 debuginfo(build-id) = 241f3b0d3a7551539b181fbc32e33c88cbbf0c46 debuginfo(build-id) = 247094510f71b3bb61d72344c4e2d1024bca5ec5 debuginfo(build-id) = 253246dfbccd4aecc86a208076fb50a6e84b9693 debuginfo(build-id) = 2611f81470b875262bd3d0f28708fec4a2092378 debuginfo(build-id) = 262048c8c64ac4666ebb4fcab1c061ed357bde87 debuginfo(build-id) = 2632ab5225ab9d76bf0f3d4951a65d22fe4144e1 debuginfo(build-id) = 26524236d1e5e46c8a29bdd169ba1b9016e53a96 debuginfo(build-id) = 26c40356b9618130c5fdb953b869b80df93d4e6d debuginfo(build-id) = 26e43ca7bedafdc10ba6757e87903bf0427c19d1 debuginfo(build-id) = 2721ad5a1e2cf54f3df8311245911c10cb4fafa1 debuginfo(build-id) = 27370e812dd5a9976ab3c4e5730de93d4eeafb81 debuginfo(build-id) = 2750dab232a920210f52b44d74b656af856b7e9b debuginfo(build-id) = 2821e9ea028dde2563bde0b141016ab15c9ca202 debuginfo(build-id) = 28679901f1dd834108fedcbf922390db675efa49 debuginfo(build-id) = 28812d5ff004b397ef54aa9b8a7216492f5e9c75 debuginfo(build-id) = 2888d5e26389a00612b1887c54a8080f4da12411 debuginfo(build-id) = 28a17555f80ec8dede902b58603f88575072c230 debuginfo(build-id) = 28ed30bdf77ac27193cc7b5ed79fcb3c44c1dce9 debuginfo(build-id) = 2915170fcad43ced33e4fb0c1d396bd6655c41ed debuginfo(build-id) = 299d31e273c873c9cef78bccbb8f319c72647ca9 debuginfo(build-id) = 29cc5243b6b2188561f2ee4c2a9452a25da0751e debuginfo(build-id) = 29ebee40ce85fbf7c830a80c6f14ccde14b8a07e debuginfo(build-id) = 29ee0640110596574b692f94933ea707a7064b85 debuginfo(build-id) = 2a8f583ad7fafd8f39594fd21675b2daca373f11 debuginfo(build-id) = 2a98ab4f3f0c300a2b93e5d94f114e2ecb24cd9d debuginfo(build-id) = 2a9e51b7c32e521a35b19345901fd0709c950a16 debuginfo(build-id) = 2b4fce673fd59436013ef4dfd7904d76cda79c2b debuginfo(build-id) = 2b8749e9fba3feabfc2d891cedd23c2bd5afbd0f debuginfo(build-id) = 2bf3a224a4569b8a15961756412e5c24fa286f6d debuginfo(build-id) = 2c026febbe2eb276c39fbb1cfdedf7e57777666c debuginfo(build-id) = 2c2dbd13d4c76930819f0a8fe92bd8353a160a6d debuginfo(build-id) = 2c6101d8be72df234557a7f25b9245ee7960eb1b debuginfo(build-id) = 2d840b4dd80df4471103dcde623a2f7934984672 debuginfo(build-id) = 2d925c1cee25eb47c020aeb51f70004a9f9907e7 debuginfo(build-id) = 2e533c54c8f3e5e8b4f289bfa2dca8d7a7dc23c6 debuginfo(build-id) = 2eca21be5418f8ec9da8b2cbfca49270b41aac47 debuginfo(build-id) = 2ef29958493c62f76a80be8c86fa34bc536a81d2 debuginfo(build-id) = 2f8dd6992e67c55d06982c4ad2efb0aac3696193 debuginfo(build-id) = 3001ebb04aa85d95b05e67bd56fd6203fdc712b9 debuginfo(build-id) = 306fc3ce6ca58b3ee5519d41359021bbfd7578cd debuginfo(build-id) = 30aba37df08ce442637b37ea702a4d8979f1b13f debuginfo(build-id) = 31270ccaac5851e6cfcdffc636664a1d453ce7e1 debuginfo(build-id) = 3128754aad33c09a9164371efc8f3da09e74e0d6 debuginfo(build-id) = 31669aed0b4d8b9568c66cec4379946901a93104 debuginfo(build-id) = 31f43de2348bdb8987d37dcb1066de29e0fdb31b debuginfo(build-id) = 32ad734617fad835d57ddbec6dff2961d0b4a006 debuginfo(build-id) = 32b66e33ad366807bf4d9766934f8dc586c138b0 debuginfo(build-id) = 32c7b8d255d13b0f55e4e62a73a04578545d727e debuginfo(build-id) = 3469e4a3f8cdb1d9d10df730a97c066e30e6e692 debuginfo(build-id) = 3472f8b72c5bad6510e66e2a4377956254514116 debuginfo(build-id) = 34c0d1f4da42000f3556aaf2a594714212b5c056 debuginfo(build-id) = 354cf22b33bb6475a7a8a44c9d76eb45cd7eac52 debuginfo(build-id) = 35559e8ba2c5d4e1e550703f7bc8d4f28868c446 debuginfo(build-id) = 356bd28e21ba1660d9de9264ba8da45c37011473 debuginfo(build-id) = 36eb2bee0a518369218d0678ee06cb6225af03bc debuginfo(build-id) = 36f32a2f9072b285bb0db00deacdcf35b4574b53 debuginfo(build-id) = 373becf23bd8de4f03dd570a5ee8dfdbb322447f debuginfo(build-id) = 3745816d7b8565aa4a260324a4433678867e2980 debuginfo(build-id) = 37b767797e669d7f9471a528d1c8e2e3a7e0ea45 debuginfo(build-id) = 37e8999a24335c555e8317c4306e1d97f62978c0 debuginfo(build-id) = 3893ea64b0228c797dc2aefa157b3d6650974ae0 debuginfo(build-id) = 390ca44f8ce3485c135e851723b4083e70084680 debuginfo(build-id) = 3964303ad64edba5bbe7af0511560c47437f85f1 debuginfo(build-id) = 3aa81ba87c75430d70e51eaea76e7e3b5f24513d debuginfo(build-id) = 3ab22431518edd2bcd3c2732c662478988cd14fd debuginfo(build-id) = 3af2ee32bee791828573fe88df750ebf6068430a debuginfo(build-id) = 3b387175d15f55e7fbfdcc66f90364bfaa9c0d65 debuginfo(build-id) = 3b6d820b5d284ee5f741cb67a5474e9c138a7739 debuginfo(build-id) = 3b96b511d583859af9ffe75b74e29a0042e298fd debuginfo(build-id) = 3bab7ac5cef958bdbc1d5e6ae90351312d75b8c4 debuginfo(build-id) = 3badaefbf8e62754b2aefdccf67436275d7a6da2 debuginfo(build-id) = 3bda5cc5a6ad698456f8e54d12a69889259cde78 debuginfo(build-id) = 3bdaeedfec2137012d611494966b58b0580a4ae1 debuginfo(build-id) = 3be5ac300ef3b059f17474e6ab6ac0cf159eb6be debuginfo(build-id) = 3bebd5dcd2ee906be0b91cb534370f8e3a8904f1 debuginfo(build-id) = 3bfb17a9b9944faa2c2c42dc219c69131e822c8e debuginfo(build-id) = 3c80e43d166b8b8cc8b5c776bbbc840315bf1df2 debuginfo(build-id) = 3c9e99b31d5da12fdf1458d1c041caef6589cdb9 debuginfo(build-id) = 3d14ec5967923fe6806f05ffc932fc229bee2e51 debuginfo(build-id) = 3d6c7b578b636bb18e1fd96ad611ae8aa957abd6 debuginfo(build-id) = 3dbda36fbdecff4f5b4828cf18c5449ebca10c5a debuginfo(build-id) = 3e15a959bbc2848fd739f861f9089433ef1808d3 debuginfo(build-id) = 3ef733a267ccf18acd76be7f789ad705ecaf5c9e debuginfo(build-id) = 3f0ab0660970b5baacf80a2b27a00025331e43c6 debuginfo(build-id) = 3f32e9f3fb1e597c18f6cb9e778a4daa1363e793 debuginfo(build-id) = 3f72f9e8f0574588e7b42cc9d1ead1b56b2e41ac debuginfo(build-id) = 3f778183cae0ce1791b84114c547e54b00268c82 debuginfo(build-id) = 3f8213a864dc0323867fa8597533f54ebff35c6b debuginfo(build-id) = 40288127af1e2254a111bcbc9660ff69b287015b debuginfo(build-id) = 404cda8642e5b11f693fff0adfec34c6c31eccbd debuginfo(build-id) = 40a02dd11a7c78b4a43822f4df108aa3349f053f debuginfo(build-id) = 41d1f54ebcc6b158a90a56efa95ebcf9650fc743 debuginfo(build-id) = 4241be020405b5052852de31728d8ba2bbdc1768 debuginfo(build-id) = 42a4be87454c6e448e8814f70a3a4e3256838216 debuginfo(build-id) = 42abb115175cd0b6842a7e6f6f12513d0e4f1c14 debuginfo(build-id) = 42ad1692a06a8e438d6e446350a14da4eac5357a debuginfo(build-id) = 43fe62dad2ae44677f2c95b0ce44049992914659 debuginfo(build-id) = 458da852f5b72361fe1a330a2b64de1b297d8544 debuginfo(build-id) = 45fe8c80b2bdcd924806cb840b2a04707aa3e501 debuginfo(build-id) = 462c984a219025168c470fe78d01413319f0a50c debuginfo(build-id) = 4640040616f17a44caccd85e0d3dcd2ee1db9765 debuginfo(build-id) = 47e9c9d121e16719539a851ccc45b5508b27b195 debuginfo(build-id) = 485e30e842da1b74de78fbd827d0dea6300e0ada debuginfo(build-id) = 48c0c467130785589644510e0490816d0c1fba9c debuginfo(build-id) = 49155d53bb8fdee8fa0b20125e52dc7735b4cb83 debuginfo(build-id) = 491aed14bcaf4f7b146283d92742d012202d8b9d debuginfo(build-id) = 492d13c73594ae4f38d6e4578029b67ae157ee6a debuginfo(build-id) = 492dc370c42da74570dc7f37705022472abe02fd debuginfo(build-id) = 4a02bb5b7a4db89f8540c1ef1946a22eeae4650a debuginfo(build-id) = 4a5012dc0ede01faa3a161c51c023a7bfe04c674 debuginfo(build-id) = 4aa4259b39e9f2ba423a038b85887d3601651d5c debuginfo(build-id) = 4b07fc0886b607c95eee1e82f7869ef7f27d3704 debuginfo(build-id) = 4b4215c63fb6415c6fac63c9a8821cc3aeb46887 debuginfo(build-id) = 4bb1e2ec56e47ddfcc07aaf72ef35ab94e506501 debuginfo(build-id) = 4c1ae1174445752ba853df43da2a55d0eafecd87 debuginfo(build-id) = 4de96ea76cce4f9983dbfacf967b0c11eb2170c5 debuginfo(build-id) = 4de9fd6d28062bb66a660b34e23a04e74535c3aa debuginfo(build-id) = 4e6061fa3e1474fec3e8caf1b168e58a1a13b571 debuginfo(build-id) = 4e9dfc331235232a4e257ad29d33d0d9773c3455 debuginfo(build-id) = 4e9fcbdeb9f1c63118c55ecbbf62a0a2deded175 debuginfo(build-id) = 4ea42c2c9907c2512b95d25f91d61ca72917c724 debuginfo(build-id) = 4ec468709b5e6e50a05e0a7b8323319fcb5f0929 debuginfo(build-id) = 4f494ebe0f0e13428ca64cd0f124c92509c64ed6 debuginfo(build-id) = 4f7a7dfefd799aaa73388068e154ca3c32a11d89 debuginfo(build-id) = 4fc8473c25e1a5f8f8904e8437aceed493753f94 debuginfo(build-id) = 5016f1f4405dd05ab3b01035da7147ca97ae645f debuginfo(build-id) = 501b7eb860209d3c847b609edaf834b201ef2090 debuginfo(build-id) = 50990de8820347754ebdb48f8de006e75e95007d debuginfo(build-id) = 513e1633a4972c0e68edd57112035c13de70f5c3 debuginfo(build-id) = 518954085509c671dfd247a0923b5fc7cc377926 debuginfo(build-id) = 521806a48be064d34c0d42081240adf513b02981 debuginfo(build-id) = 522d0f26b681154121b5628e41e632f586fc76fa debuginfo(build-id) = 5263659a2107033329c0b24db68638ac6b45bab2 debuginfo(build-id) = 527e6692f5a7dbfb4789dd63fc2f9cfe5cb55056 debuginfo(build-id) = 528c7939fce5ad7da2e53550dc19245c51ea3256 debuginfo(build-id) = 52fd7d0816d3c20ec5576f1aac92a72ab170593c debuginfo(build-id) = 531096f3d4f0617f6602c8e63f37af55d4d257db debuginfo(build-id) = 53246d6392c05a7c44e4576148dbd1c599f243ae debuginfo(build-id) = 532d078cc23ac32dfe1566a32d7d7aceeca9c38a debuginfo(build-id) = 53b5073823e421e706ec6e023b7afe92ef7909a2 debuginfo(build-id) = 53f3ec367a3f870694c8c8147db867c984273fad debuginfo(build-id) = 54d093bac223cd695fa5d1bd0f28fb5bd65b1a61 debuginfo(build-id) = 54e06d75db075b9fb0201ab8258f801c53e614b2 debuginfo(build-id) = 550ac2da4e2e7b813fe5d8a8b0722ea3df034dce debuginfo(build-id) = 5533b7e6af3527aa712428ba6b281d85fe24d835 debuginfo(build-id) = 55b6196ef9201624fa83d8cbca587b33503af874 debuginfo(build-id) = 5698ba6518dccc0add607fcfb5196b60aeeb08e1 debuginfo(build-id) = 56ee9ef404b355603be0d296201867ef37e7f6fd debuginfo(build-id) = 571a55b03daae698fe5e2191566f454ca0c41b0b debuginfo(build-id) = 575081278c07fe93fb046934aff2b7d4d8a06a09 debuginfo(build-id) = 57a80a292bfb1e80ae3461f4d11e2dbb33adbcde debuginfo(build-id) = 595cefc201d7ba25b96aec6d7d11d4533d75d2dc debuginfo(build-id) = 59de9d50f362315b38fd0adfec190c72fd436768 debuginfo(build-id) = 5a264b12752c5d05bc6f934d55ae34ad5fd3c9cf debuginfo(build-id) = 5a2a1652f91b3a88c7b1b1d8a385e739034284ca debuginfo(build-id) = 5a36157e4684fabc40a463e31388c5135f56f430 debuginfo(build-id) = 5b4df68f0600d6491bb77f3a52f27ffc8e686590 debuginfo(build-id) = 5c13436209f803565ff0e51a80cfe09b785171fc debuginfo(build-id) = 5c220a4b0c21acbfcacf18c35ddd6020a3d89930 debuginfo(build-id) = 5cc57bee149b95bf5571d2098d2add61bb5a5cfb debuginfo(build-id) = 5d0b549494abd68717483c8c53641db803699066 debuginfo(build-id) = 5d643d29df5beaea9666028db0bdfb857fbda81c debuginfo(build-id) = 5d69d871492e30abb8e04ae834b5ca12bd37bf59 debuginfo(build-id) = 5d714d24bfe7ed7a92fcd2ceaa23457f072a101d debuginfo(build-id) = 5f2076f51e56b960dd4aee8b5942b28e985a260f debuginfo(build-id) = 5f32650681ef6f3221e7d0470c02b5f1c909e60a debuginfo(build-id) = 6005492009446953798205c28f1650a674ea7ce9 debuginfo(build-id) = 609aea28a393d2de45acb6e712ceba78502be379 debuginfo(build-id) = 60b645f7da6598a90668066984ff04e9057a29fa debuginfo(build-id) = 60fbf6a86d7e719766374bf1f2d88b67edee3a23 debuginfo(build-id) = 6134fb725d68b05f9b227c8512ecb45daec69e07 debuginfo(build-id) = 61cee3b3d42610e1f9ded8a89913ef4ebf6591f9 debuginfo(build-id) = 61ebf3f3b152a0318483f1faeb41af196239579d debuginfo(build-id) = 6279d41350667b386f1fe835f3ae7bfa3fa76348 debuginfo(build-id) = 628a1699d90ca94eb95040befe3cd3b36970d208 debuginfo(build-id) = 631fa7cf527b55ebe33dbfe801e2bd7a30ecba39 debuginfo(build-id) = 63a85e09b39d4af40924e6500bbff20d05d58e72 debuginfo(build-id) = 6415f061df87d343e5799b5d192eea238672b580 debuginfo(build-id) = 6435535441d7f56869d7ea9d8bbffa9909974e8d debuginfo(build-id) = 651059f0aea515775264f413968755a59ab3451e debuginfo(build-id) = 654268142fd099b193805a7137fa18317dccd6d3 debuginfo(build-id) = 654b87d00a9933d8bcad0fd1e068f5747bc37969 debuginfo(build-id) = 65515d85e8d5afd9e1f75154e6073608a7fa307d debuginfo(build-id) = 65d1786b6bab797c050081a1723cdc1b599d4df1 debuginfo(build-id) = 65dc084368dfea009a7b5f66dbf640d7b643bdc4 debuginfo(build-id) = 66745ee8c3dae5eb3605cac49c20ca5dad97b886 debuginfo(build-id) = 668d7d3a7fdf15e61ff526162aed621cf96c95c6 debuginfo(build-id) = 66ff295b58c1991a04d477cb605aadb349a63f66 debuginfo(build-id) = 6737ba0cacf1909e545a1aef12523c4beceea2a6 debuginfo(build-id) = 6815c6d8ad5abeeefb747d6ee1b5ef77c656e1b1 debuginfo(build-id) = 68342d09df63e36bea36750a35e621756f8a3ac0 debuginfo(build-id) = 68ec83bc21aa898cd7370760d07006e2bfb0af18 debuginfo(build-id) = 695d9426213894ff5ceba73ada9005a1ba2183fa debuginfo(build-id) = 69796cdee40d5516f10aff6303989e1e656f1d20 debuginfo(build-id) = 699de73022d436b45ee29a0bc31c77db3e1a0324 debuginfo(build-id) = 69c981a3fa73bed3e388e9f9bf39d3a38e0d17a9 debuginfo(build-id) = 69e29d12a219250b00a9094cd76c91aefa976d3f debuginfo(build-id) = 6a2a6b2c231c13bd8395c3b169cbd858df3e6cba debuginfo(build-id) = 6a337d2524530a7b5451eaf2932e9af7fb84326d debuginfo(build-id) = 6ac2e811496229b67a05532468e9fe0d4c6e47c0 debuginfo(build-id) = 6ac3538bbc6121b7dcf96d6568fa6899f6f45e4c debuginfo(build-id) = 6bc5f1a29ee69f6239bd2c9da5d5ff4e72b8f170 debuginfo(build-id) = 6cce3f432582aac35eee81270e621d6bffba58eb debuginfo(build-id) = 6d05dade002c973c8d892b913cada5de493c1010 debuginfo(build-id) = 6d79b322f6ee81b128d650ac0d97e630e70e1654 debuginfo(build-id) = 6d93b5ae6413084e3c585188b5ef4b01025bb1ea debuginfo(build-id) = 6db116e6c3ebdf19fd2b71ed04765d7bddea5c0a debuginfo(build-id) = 6dd8475bb1aaf8b62261aff2ad1d86390fc743e9 debuginfo(build-id) = 6ddcd39138276438c451702ae0565523bbdbff34 debuginfo(build-id) = 6e96cebe5899d684de1d2b4b51ebb5b5f1543352 debuginfo(build-id) = 6f3fdb195afe372c60d8ec6d2e7129302add4d7f debuginfo(build-id) = 6f71f624d53913d5bd0c1b71e5da757745e7af70 debuginfo(build-id) = 6ffa41970bb228d6009813c32a4f95fea5971c14 debuginfo(build-id) = 706ba36b3eee7eeb92ea1f564932162f41ecd8ac debuginfo(build-id) = 71f5c0a832aa3c87a88b433f30680e02066c797f debuginfo(build-id) = 724a94c9459c0df2d5dc19b6334fc1fa4392b38e debuginfo(build-id) = 72e14afae06ca5ec317cb2eff400b560a5145fc3 debuginfo(build-id) = 72fd8b4f939f48ad09f33c165264cd8e3fea522f debuginfo(build-id) = 7320ba42fe92e27cc6b3821b94322eb130f31129 debuginfo(build-id) = 732bfdce321020d1acadd94776f0fe59d60cd84a debuginfo(build-id) = 733d9f68a418b4b699fbdc766c05aa68eff281d0 debuginfo(build-id) = 73b05ccd40586369518728f7fe0cd27c9c24cb5c debuginfo(build-id) = 7454307b08c9f8f4f7ba8656fa227bb1ed5ed510 debuginfo(build-id) = 74761544420e81724aa508b831888f9404764965 debuginfo(build-id) = 74bea9649b922a6fb3ffdfe7507fd3ed391df945 debuginfo(build-id) = 757e97b28fb208492ae99cb03d4f9ebd070094f5 debuginfo(build-id) = 75e4aea7d9a47c0664403de328e2637bb037ce1f debuginfo(build-id) = 760db331c1a243be529331e9f1c5f742a560c79e debuginfo(build-id) = 7618fd50df5124f90119ef5caf4a0af873d52e45 debuginfo(build-id) = 771be84408b7b1f7a7eaaff12bdd5c07bbc48185 debuginfo(build-id) = 7735a3a2cb634ad0d764e6f5c1186b652676afab debuginfo(build-id) = 77ab1d2c56f829208b6b0b2dbbf16c2d3253b575 debuginfo(build-id) = 7870ea98c7394d3edf9cc9fd63be1c857384aca9 debuginfo(build-id) = 78a4e55dd117e61a9e9635cabfb758831aaaa864 debuginfo(build-id) = 78e07ec6dd2abdb8d0fbd84cdc86a1ee08ddfa14 debuginfo(build-id) = 79837c61e5f528f19298dc1155ced92dfc75c60b debuginfo(build-id) = 79d8768d09967fdf73e7652165bdb18134f42835 debuginfo(build-id) = 7a29848bc524c7d5d65da18df86a756d7eace711 debuginfo(build-id) = 7b0a999e04e885b3f269b957e8b78709de0a8f62 debuginfo(build-id) = 7b2eef71cfacdd248841a4fd96e28c07a7254cc1 debuginfo(build-id) = 7b43384339f81f09f86ab232a332a094ad3f7c49 debuginfo(build-id) = 7bb6c86aa19a3f1a76f233c956963d715028c7d7 debuginfo(build-id) = 7c4b9adf8da057fb6474d753a875c21745a2fc84 debuginfo(build-id) = 7d2df9a4b2afb013b12cb48e508db106a2b6a5cf debuginfo(build-id) = 7d38db38e064b7b7115706d0df2624d03ffaaa35 debuginfo(build-id) = 7e303089107c8e14d42fb0be8a51e612c85a0ae0 debuginfo(build-id) = 7ee080a7ffb5f51c68e341210a0867b8828391da debuginfo(build-id) = 7ef23fe27feca463654c3c855278ef2b6fa611d7 debuginfo(build-id) = 7f05a696d6eeb0b1a2fe56f96b59a97fc57303a7 debuginfo(build-id) = 7f05e89b330c1271e2526fd5e63d261ccef1205c debuginfo(build-id) = 7f8b5dc11ccc55f758574af07f86d67c379ee484 debuginfo(build-id) = 7fee461b9cd3ec1806ce1c25b24a101a11694f84 debuginfo(build-id) = 80132b5f5c0918fe9309c8fb25015d6f582c0f81 debuginfo(build-id) = 80cc8a3b4d862450fc4342378f271343a4b72006 debuginfo(build-id) = 80ccc1b4a9f6aeda7a5a88074801e49a8a6ff236 debuginfo(build-id) = 818605142a3804ed0fb04baae173b9c6b41b85dc debuginfo(build-id) = 82037e3004a4b055143b3dca0bc321e46900d878 debuginfo(build-id) = 823e3b2bad4fac396556cff10b720edfb7274f15 debuginfo(build-id) = 82f29a6cba31e2b8c306f6816e5bca6754c422ed debuginfo(build-id) = 8343023a740cd7fef85bf6c7b39b8ff0e1c72f89 debuginfo(build-id) = 836f17a1f2f1103c9bb79de55b209c9508032f7d debuginfo(build-id) = 83dc992c6786678e98c4ec427654f09ffc260061 debuginfo(build-id) = 83f59e7f3ffa959a5299d8d062ba1f87a0479267 debuginfo(build-id) = 8545649610492188fd555b5081c72095134b2f2f debuginfo(build-id) = 855f28d73fb1a2a3baff0a3304f09a6d41bda4dc debuginfo(build-id) = 864424487b58a82c29fd41116c3b50d93683b69e debuginfo(build-id) = 8676b236a3ddf0b78316b089161cbf2e3396e4a0 debuginfo(build-id) = 86c1e334943a3ee702e7b244e5abaffab826144c debuginfo(build-id) = 86f2e4ce82154baf546953b0a2d08a12088473f1 debuginfo(build-id) = 86fa2e2003bffe3b9566456d795440ad085c4b74 debuginfo(build-id) = 874cc0ba52efbc58f893cd91bca7b7b4a86b57f7 debuginfo(build-id) = 87ba647e86e6164039edefe449f1f084926526e2 debuginfo(build-id) = 880b9dd3a261eb982ea86f21ac2fffbc1ca0e2cf debuginfo(build-id) = 88c0c964ecd239fb7ab8e18702004e923fc3e3b4 debuginfo(build-id) = 88d5479c78868cbe2dbb740afeeeb33effc3beb8 debuginfo(build-id) = 894eeac9840b4154a388be1d6804e2f7abac1716 debuginfo(build-id) = 8a36ec56fc74052ff779b6d6904481c9d68b22ad debuginfo(build-id) = 8a3c924c20ef313bc32fe8b99dd4950afc1f5fa8 debuginfo(build-id) = 8a753d620dad63f8bc39d523300956772c49b00f debuginfo(build-id) = 8a88d5678ccddd94075c572bb23593a5e6849ac1 debuginfo(build-id) = 8ac9260b692c99414d4e6146afcf58b03a03a273 debuginfo(build-id) = 8ad8912f024f66bdac29a2424f299e9a4ed3edeb debuginfo(build-id) = 8b825e26a281f3c9a98e6ce9be6db3e72f960afb debuginfo(build-id) = 8bafacf6f063eae8847c2b84ae379b062a87d776 debuginfo(build-id) = 8beca795c27a28b66b255412ea2ed94d44eff769 debuginfo(build-id) = 8c7f2ada0fede516f76fdd0fde1a5d0b68e4f9c1 debuginfo(build-id) = 8c8ebbd42f41a4d1a2621deced59ffb3534888ad debuginfo(build-id) = 8d360b9c47147254ce253768bfa44b9c715a43b5 debuginfo(build-id) = 8d4e85349918816d9eecda9d3a5760d485068246 debuginfo(build-id) = 8d9a3d6544d9debc29bc9b227db56316a5d18ba9 debuginfo(build-id) = 8e487cbdc7c5f1d42370c6ba2e182c2d304f420a debuginfo(build-id) = 8e54c11029d8654908a88b04054de64b518dd6a3 debuginfo(build-id) = 8ed619976e74522e374f01132e346faf507a0e21 debuginfo(build-id) = 8f453a9da7e8c596569de91627502576b419c558 debuginfo(build-id) = 8fe1f00d2bf3ec786060ad4d629c8d6a527ae81f debuginfo(build-id) = 8ff5a9b23b6d1e119c1a44d936649ea9089cfd81 debuginfo(build-id) = 90aaef4700c4a76018736e789e281e05a8149a23 debuginfo(build-id) = 90b63612a116301eb0260a18cdbeb9b4589d71b5 debuginfo(build-id) = 90f616f88d2bff44f5bb32bc1c00efd87b6060eb debuginfo(build-id) = 91107681df2632aad86f2fb91e700b90ff025b9f debuginfo(build-id) = 931521f85b3234a19b05f60b5d7e7570fbf5aff3 debuginfo(build-id) = 9324780ee3ea223d972012f42a5c1500542a4d66 debuginfo(build-id) = 9353e9ad2c22670968e104e2b13a77d5ed2cda1c debuginfo(build-id) = 947356b7224b05299cd920d0ba37aaade9c44a17 debuginfo(build-id) = 959625e16ae55283162e03d43b607dc97c34aa16 debuginfo(build-id) = 95cf7ee2d51be84be751a8bd5e72fdf45a14f5f5 debuginfo(build-id) = 961b2b03995f983630f416124ae0c76acb7a9a89 debuginfo(build-id) = 96960a91eab945ceb67e48d593af19830723a3fa debuginfo(build-id) = 96d08390039eb5609cf008a37ab52c09ebe67423 debuginfo(build-id) = 96d5a26a61cf10c7d7f3d4980b12d19726d17a5e debuginfo(build-id) = 972c0a972e711324530f7c3319e2a355d631bc27 debuginfo(build-id) = 972e2a1dae4d016e59e49a8561c06caa2c424abe debuginfo(build-id) = 9842be312873a03035626f1950c8b2303b7342b6 debuginfo(build-id) = 98d0916272f7cf4cf4c4f59daf55b80ce0e595e6 debuginfo(build-id) = 990e1c0c9ea6d9795bf3fdc63435ccc966ac03c8 debuginfo(build-id) = 99189c11f90b43c309664d6348883b568444359d debuginfo(build-id) = 9955f2b6b430d8ec4fd315acb58b64ea08d6eac9 debuginfo(build-id) = 99bc6d283c5ee030a97451976fa2e733f2c808c5 debuginfo(build-id) = 99c7554c986eb2775d71a21936389d1d2ead1260 debuginfo(build-id) = 9ab3c32ddf00093fb4a2813539be54acd0b2926d debuginfo(build-id) = 9afcc715381101d5f5525fd52c03c8555ef7bd4e debuginfo(build-id) = 9b05210d48a54de26a847dc371dc5ee909733376 debuginfo(build-id) = 9b1ec14786e99f4a037e5da1b1a1122a0f9c74e3 debuginfo(build-id) = 9b20c22a0e8cf32043466f2069a7da97cb890200 debuginfo(build-id) = 9b2ac713b3e22c6f9123cebe3dfd7e0c48f0bae1 debuginfo(build-id) = 9b4140a04e568012b2cdbcf48acb0057c29c031f debuginfo(build-id) = 9bd96ef2cc0293031216aa49022b2982f93a9e05 debuginfo(build-id) = 9c1b11929d8e2f2b3826ea6d0044712ce0c7edb6 debuginfo(build-id) = 9c2c21320b4f841efebe0d58bdeb6309d7bb0a2d debuginfo(build-id) = 9c7f181278b1d857c203c69775ec33f3305fd3cb debuginfo(build-id) = 9c8ea7a162b9a7328266f6befd5b33fadb204d1b debuginfo(build-id) = 9d1fcd911661a08f32b43254eba1b296a9251a4a debuginfo(build-id) = 9d3ec7817b9dded6391a2c5068749c1c63c7ee90 debuginfo(build-id) = 9de6d462ac5af511a6986520ed4d31415cb4cf85 debuginfo(build-id) = 9e05ad1f5949fd6bcc899c3ba6fbc6b8373c79a3 debuginfo(build-id) = 9f1e252476322798889147754a1dd8029e8f174b debuginfo(build-id) = 9f76ac6c706516876efc132d351ae6b6bdca9cac debuginfo(build-id) = a0309a4cde27f3fde47c56e9e5385f79e7c548bb debuginfo(build-id) = a063b8da8f98b7ff3932c689354e3ae865e49dff debuginfo(build-id) = a0dbc9dba76720b7c02aad2ed19d1713b15d7d42 debuginfo(build-id) = a1357ef102b8c396fa191d0c25daea58fbef5646 debuginfo(build-id) = a16e19d55f9c370e203a2ed1e05a74ab6a7401d5 debuginfo(build-id) = a16f339437d7fc3beac210c20547e288dff05bbd debuginfo(build-id) = a1c6c84b7171d7eb2049970297ad79cdc33c9f57 debuginfo(build-id) = a1f1194ea1a2458799c0eb017b70b2c703712228 debuginfo(build-id) = a246d1e892ba7107e667b16609f34d51d7fb3d59 debuginfo(build-id) = a38e63f3674f26cd79c2895d12772967c99c9acd debuginfo(build-id) = a48230cddd99569e31fc1ca0614f670de70c2809 debuginfo(build-id) = a48ee2b22e7c9e29ed8be05329c06ae82328b0e1 debuginfo(build-id) = a56a61c79db7b8100739f7b00c2b6de2e13a7241 debuginfo(build-id) = a57911588dea97eead791d3196ecc7a7230fbc29 debuginfo(build-id) = a57fbe5cdfa3ab3e6e255254f1bb0dbbeebbe17c debuginfo(build-id) = a5f628c14cf3ddc56ae43f33a5a716c88b8b34b5 debuginfo(build-id) = a62599975dabc8840062cbd1a7b1ddb244b432be debuginfo(build-id) = a64b98ad88580f32d8693bd11baac94d404d4456 debuginfo(build-id) = a68aca1b092de78c41c37cfe611b283f9f956a2e debuginfo(build-id) = a6c4116e04313834590e1220b593964672ec2af2 debuginfo(build-id) = a702f27dee1409e83af27f47904550f4dda067b7 debuginfo(build-id) = a70b0510e6580c09cafd1cbc174670cb6f980070 debuginfo(build-id) = a7247e4453bf6833f0ebc9c689c3e85d8cf03069 debuginfo(build-id) = a79a709946229fcd64f6f9fe32ea823cedf12ca8 debuginfo(build-id) = a7f01b87734539171d6addc981950143a2e37321 debuginfo(build-id) = a7f8f80fc0e05e8357e53617b4257a086e1249b9 debuginfo(build-id) = a80c50dd25dbc7381e5a0a16f5f1754b6dca38e6 debuginfo(build-id) = a83ab169da7d0a1b146888beca18bfd3294fc6d3 debuginfo(build-id) = a87f5e9dbaabb7820e6b2a9203abafb3cb6026a3 debuginfo(build-id) = a8d00827990771ba5b128b86b2bf6b0413b502fa debuginfo(build-id) = a9dfca5323f3be25c9994b7706feed24112e572c debuginfo(build-id) = aa3c05652fed311a711a5287b07d92c9d7ae3c07 debuginfo(build-id) = aa4b4550a23fc0752e7b025647b750ab85055536 debuginfo(build-id) = aa72bcdabcadbf7c689151782490f236f4172d13 debuginfo(build-id) = aa850b56b38a52fad8c5bd5fbd7ec3c84c5257e8 debuginfo(build-id) = aaa7cebf75fca36f7126b0a59b14c059422ed207 debuginfo(build-id) = aaaadf1b98c94d9f4a3c2a525e22b2a1ad210320 debuginfo(build-id) = aad8f965f521f0b92a44c185ba171504f3e28f6d debuginfo(build-id) = ab365a836deb1e766567499cc668e31fe552744b debuginfo(build-id) = ab8dd4f35abf84fbf55ac1d77f9475503e2e4e71 debuginfo(build-id) = abbf7ca2b0266409f3706fd84a59f64be7058a77 debuginfo(build-id) = abdc4e2b6661fc702abe7767d06aa22416723bd2 debuginfo(build-id) = acb38a9f37707276fd6fda4551d54d72c28357c4 debuginfo(build-id) = ad03ef595bd70b7a5cf6b996b75f672953c3c0d9 debuginfo(build-id) = ad7648031cb3bce4ee015e9ba6db73e3120b1508 debuginfo(build-id) = ad772e001c41f9c46b8793f6a7a2a512fe7121b9 debuginfo(build-id) = ad8b08763558d02e119e27bea3c5118811a07692 debuginfo(build-id) = adca0f1ceb3aeaf15be74fe2880fb5e7e608540d debuginfo(build-id) = aea97536a493652745596097a27da5b28406ff3e debuginfo(build-id) = aee128c2a3f22b2650c2a6ca10d001ea0b44cccb debuginfo(build-id) = af0c0d7fdbd7fe07d2308755145354255a8f66c0 debuginfo(build-id) = b02d168b5f92239ded473795c5ec6c9a53038ec3 debuginfo(build-id) = b0a27b1fc861c1046a0aec697d1af0ed38f4ee49 debuginfo(build-id) = b0d75db918464052ee68859173849b8154ca15d7 debuginfo(build-id) = b11aa3615fdbe5e0bee77844b345872ba3d4720b debuginfo(build-id) = b1624128820b5ec0cd747f5385dedec3dd58e780 debuginfo(build-id) = b1888215f0d2870caf5738fa56f57e7a2965aef5 debuginfo(build-id) = b1c001385428eee78b389ddd8c92f93531f02cb6 debuginfo(build-id) = b1df738dbcdb0c470cdf2cf400d1c6dfe62703b1 debuginfo(build-id) = b2264372b7405a1da658a46e378236354df8c621 debuginfo(build-id) = b235e1d1b8d3e11fb68dce1ae569dbb5c601f6e1 debuginfo(build-id) = b35d66841b5f8dec68bd69bfc2e0371010f52fb4 debuginfo(build-id) = b415f8ba0f2de1d8300afcd70d802f49c842fedd debuginfo(build-id) = b481991b53869b7b34137e341288e029241b965e debuginfo(build-id) = b49243345b018b7420bdd2dcaed8f7df8ad0d7cc debuginfo(build-id) = b49757db1517cd751c82e13e22d5ca7536a506e7 debuginfo(build-id) = b4aa2d7e3df64bf4fc56ed701775d8a5a4373b9f debuginfo(build-id) = b4cfbf7b74adeeb98a26d01717b29573f396c2d0 debuginfo(build-id) = b514affc10e89f788b07f02ef32cea8620cd1b70 debuginfo(build-id) = b55ccdf2bc28ef80a325e9edc58277bfe87e8159 debuginfo(build-id) = b59160f3a2f0104648ea4eaa68dfd1c3ddcd4caa debuginfo(build-id) = b5a456a21d8b019670b8d161b091549359962fda debuginfo(build-id) = b5d705270b5e88d03f21f5e8ab101c9ea5b1bcee debuginfo(build-id) = b5f5d9638115ece2d1a8cfa0c3f2c48a92b9670a debuginfo(build-id) = b626a2c3fd266829d93ba4dea8121ce0061fa6ae debuginfo(build-id) = b67956cfbca91b1a73ce1321ec09820156c0871c debuginfo(build-id) = b750a6c02ae653fa5512cd2068cd40ace4168d01 debuginfo(build-id) = b75aa7ab0dd36b39223fdb742fe6844b2521e2a0 debuginfo(build-id) = b80fbca1a4e43642ff013aebe30cf436c5d00b02 debuginfo(build-id) = b859e264055f26008aecb75282119dfc002fbd70 debuginfo(build-id) = b8d3664ee8dd255a802c3fd6e349b6829d513b73 debuginfo(build-id) = b98b1f47f390f62bcc73818397dbb6b7d1e53c93 debuginfo(build-id) = b999b2485e1591949495667614f611fe6770cace debuginfo(build-id) = b9a864f8d04b9575dc708e74d1d54448475da476 debuginfo(build-id) = b9bfb8381234441ad93395fc737aaeeb85b2861c debuginfo(build-id) = b9cf1bc0e1bf2d5926e12bc1ed36f144eeeb7e78 debuginfo(build-id) = b9dc909de137562ce1739c9114fdae7d39a9c343 debuginfo(build-id) = b9e5c8da949cf03ca71fd3e74122c87d70b03be9 debuginfo(build-id) = ba4e072c9b7ded17b0fb01220970f8e145943d0f debuginfo(build-id) = bb0a4a831d3e269cf06aca466fdaa96f14adf751 debuginfo(build-id) = bb2a5e90faee5fa438353094452a0c2e036a417d debuginfo(build-id) = bb49dbd915b15da2235b3999ddfa3afea5a66657 debuginfo(build-id) = bbb7f3e1d68ef9c74163561e45c6e8cff380eea7 debuginfo(build-id) = bbd6cd0bead84f4e39ea840d63f44fd7336e09da debuginfo(build-id) = bbef9087c93d603684b2f9002c6220ad1bf5147d debuginfo(build-id) = bc71f64ecf65eb099239202dfa9488253d458265 debuginfo(build-id) = bcb97fc2aa0bc19ead67026ee0fac558eeb4b6af debuginfo(build-id) = bcde4f8c387cc4609a5525c2859542cf5891e66e debuginfo(build-id) = bcf219fa1ddea1834b70d9a212ab82ef0c5c4f46 debuginfo(build-id) = bd51d11eab9c46fdcb1f86c89dcfeee910c32cc3 debuginfo(build-id) = bddeb9e814673efdc3f30779878ad9be0b0ed508 debuginfo(build-id) = be5d1ffe17979ddcbbd039daf226782d289c93d5 debuginfo(build-id) = be679ee84dcaed6ec1d878e517f7f3ba6a2c3442 debuginfo(build-id) = be9eac43aa06b75cc4fe55a6f3dbb919e42aeb85 debuginfo(build-id) = bf2b123c204adfd5c1225f564232ddad313962b9 debuginfo(build-id) = bf539efe66e8951a8e896bb80ade9c52b672acec debuginfo(build-id) = c009625a3cca4d3d860a4f88acd60012ef3ecdf5 debuginfo(build-id) = c07c8a417d4b041d1f8b897ac6ed195277ec91fe debuginfo(build-id) = c08e93aa706e987144c8e103f104779acec8dbe2 debuginfo(build-id) = c0f3fcbc1c3f69630b7af3e67dc088ae199a42fa debuginfo(build-id) = c146c51de8fefe76a40fd062db755e1c649493c2 debuginfo(build-id) = c2919adc0f70428d1dd7be517f99cb3ad091edd9 debuginfo(build-id) = c2f227cfec4978635a977971594dbb803164d59c debuginfo(build-id) = c2f5f0f2c376137a86eb3f96f74c63209f2daba2 debuginfo(build-id) = c2f71dd157e87edbe99fa19bc15ad4b28581c237 debuginfo(build-id) = c37352d8efc4fbbd93eabda7c62e6e845b5ba171 debuginfo(build-id) = c39998eebe4671473b51b1897b479b0764da7df7 debuginfo(build-id) = c3a2daf2b3cc4db9e719b4ffa52cda974188c46e debuginfo(build-id) = c3bdbe8f963c3f8f5a4c92ac3ea0ddc6ba8b8ab0 debuginfo(build-id) = c40feca783f1882c93c2493896c6a2e4e0645b04 debuginfo(build-id) = c4736a5cef50eef1cae4e8e8821bd619f473e1dc debuginfo(build-id) = c4a25b1097beabf1d2ee598dfa20ceb437aac661 debuginfo(build-id) = c4c38cbd9c00c6dc106f8b4d16b00e23e1318119 debuginfo(build-id) = c508ee60ee3317cebb113a059e7af095b883b7d1 debuginfo(build-id) = c5382f65a8f89aecd77b963dadc0d34ed01486dc debuginfo(build-id) = c560129accf7fedb0220e091de5c39938419404e debuginfo(build-id) = c60a5f83e101ca11ee3fe5ec03e11025a387fc30 debuginfo(build-id) = c65cd480a2fca4cb2e9488d206670d966b754347 debuginfo(build-id) = c75fc36e18e65daad79dd0b8486f3330f5e34daf debuginfo(build-id) = c7692119327f36fb1d13f372c87c17884cf9035d debuginfo(build-id) = c77a59a0d4464968ad0b14853d867613a78566e8 debuginfo(build-id) = c7e0bf5c944d988dd1e39fcf9978a65f8fe9e8a4 debuginfo(build-id) = c7ea3f3f75d2db0595ddee272ff442aaaf16c285 debuginfo(build-id) = c8afee43b130d4ae59c961759e177f8a3b82f123 debuginfo(build-id) = c8c206ba6ed3d6384a76572667f1d9834dea31b6 debuginfo(build-id) = c9cf9270902b17bb205c4ff24fe9634d2551a626 debuginfo(build-id) = ca5892d9ca28e925f299645ad8ae6ae3c1e2c86b debuginfo(build-id) = ca922ce8a816b357dd7a881d58e16da622ed0b34 debuginfo(build-id) = ca9330d356e3cdb31d816ba8576cca4242b5b1cd debuginfo(build-id) = ca960f86923f18ad7c7f10897b702ee01e00a5fe debuginfo(build-id) = ca9a19c7799b78640d1d8a259a817b81c65692bd debuginfo(build-id) = caa9bb4d35b54921afe9689496cb8e759473af87 debuginfo(build-id) = caecf081b64d60244dc0fcbb060845f4a473bdcf debuginfo(build-id) = cb5de5941d7a59d54ec1b804d8ca8a63248f32d8 debuginfo(build-id) = cb86f2f3f50b18ca8fc426ac1c3f27986a74d70b debuginfo(build-id) = cb8b8cda86cd855a5cff2af3aebb90a5382fad2e debuginfo(build-id) = cb927bdcfd058c3045022d6cd35b2e10f0df617e debuginfo(build-id) = cc21757ee353418fe5d2fbcd4f03bb1e987fa0c3 debuginfo(build-id) = cc22730190b00fa4d0ecf3c4ca0a34b575aa71de debuginfo(build-id) = cc99a939884d5f3397ee5d95d1da8422c29f8c1f debuginfo(build-id) = ccafeac222d64bd83b5cbefe0d16a7142ef7c1e7 debuginfo(build-id) = ccba64c16f545a88e764334cab3b09e3b3098c77 debuginfo(build-id) = cd266612048a3a4842c479fa0b034937c4217c67 debuginfo(build-id) = cd567d0222f452be93f0a1f6f056235f5c40af3a debuginfo(build-id) = ce7e98a92d1ebf1b4d1ffff8506272910c7a773b debuginfo(build-id) = ceac38e3e17a4754ec7a9c1ffd66b08000f3e21b debuginfo(build-id) = cf5627dbc776af3edc14e330295917b4db144d1a debuginfo(build-id) = cffcc8d58b6fa5372045e2175b1d33b9520e0f8b debuginfo(build-id) = d006839635bb7782f351c2d04de00ec38dc2e4d0 debuginfo(build-id) = d00754c4f7d200a150a7e363861aa5ee54c85eaf debuginfo(build-id) = d0391a453dc944f3f8f0035d26a5c67875bc214f debuginfo(build-id) = d0b80665b1d25f284d82ac005bd6cf512c068eb8 debuginfo(build-id) = d1d3b34d3f490b7c0734836b97bf4c5f424d1bf7 debuginfo(build-id) = d250e16d633d4a5270a52a40d2b766a24c23e0a9 debuginfo(build-id) = d26c529bdb186f8076b026a714181e7d6bfb3e6b debuginfo(build-id) = d31a182f5a223e28f4f81cf602fe1e890c656ebd debuginfo(build-id) = d47835fd5ce2da94b1ce78e7546b1f4ee2c18317 debuginfo(build-id) = d48e946ff8add8bb089496e218acd13cc682f433 debuginfo(build-id) = d589ca35f56454ddea169a7d967a8f5164634908 debuginfo(build-id) = d63cb3afcdb073de799a0f5531c1bf9a62d20a68 debuginfo(build-id) = d6b281c303dc6d912838752d81bd828d16ecda36 debuginfo(build-id) = d6b4beb96b358b2b2e9130ec2a4e580d2af26d0f debuginfo(build-id) = d72612654b242708ddd22e61c6d670b0cec0ac57 debuginfo(build-id) = d7a18f67077ee8615465d36df67e5b3b7ba57eb4 debuginfo(build-id) = d87e8d806fceca973cfbae5a3448fe86a15fc43b debuginfo(build-id) = d8b4eb896690ec301f345ad139936567e039a2d4 debuginfo(build-id) = d91341bf1257312325b901b883eaee11f93e3adc debuginfo(build-id) = d9a85e9488c506e80292b04cd105f57aaa71e110 debuginfo(build-id) = da190aefeae1f4c264b41c0be1ece0ce4ef6f851 debuginfo(build-id) = da19f9e024ac386df0bfb21e656b7dfb8e373975 debuginfo(build-id) = daa03fe3a3b6fce86dcadf2c105c68a21b54a258 debuginfo(build-id) = dc639dc569f622870dd0a69b33bdcd8723a00632 debuginfo(build-id) = dc733e7d34ab113abed9725378509bf2f8d0126a debuginfo(build-id) = dca425ce21e430095a30ab4025f9f34416983702 debuginfo(build-id) = dda733947815d59afa2513a27fd3f8ce5ee20d1f debuginfo(build-id) = ddc6481fbc711b3ae0b65ee32ab653ca977322cd debuginfo(build-id) = df8573dc3a020af11f92297eadc0b95171ce9b3d debuginfo(build-id) = dfdc7b9db2b70d6ceffc37370065d68377acff5f debuginfo(build-id) = dfdcfc4300904bde2e8fd809b41fafaee146a3f9 debuginfo(build-id) = e039466bd0cfc753beed70555e50c3a45ddab7ee debuginfo(build-id) = e0a7abc14a1df74eb1c7331d6a4989cc46d1f7ee debuginfo(build-id) = e0be38a4c9be860fc80a8797708f7acf409cd028 debuginfo(build-id) = e1a38842d689f8c06093207b944c771620727a99 debuginfo(build-id) = e223c7dbbfccdcf43a5c8f24737be2f5544e14b0 debuginfo(build-id) = e33532b453276211b88542448147c72140fd65f5 debuginfo(build-id) = e3a66ad0bac3f6253921c7de7db56e5175e037cf debuginfo(build-id) = e41cf3d6c733f03bf15f5b777d5da62b870c37ce debuginfo(build-id) = e46472ef69950cab15045b3964a1c39fcec033a6 debuginfo(build-id) = e465193d64bbe31925ec4d9e68a04caf34263e9e debuginfo(build-id) = e4effe939a9aad700dd9a5806bfdc02bbed9c348 debuginfo(build-id) = e5341ae975d7e3f5a58c54bdaf4df69260d01312 debuginfo(build-id) = e5b3057ec7e30ed97a88ecd8b550940ad6da1230 debuginfo(build-id) = e5e05c330d5d787ff60dbbebfd72b3c95cbc6271 debuginfo(build-id) = e62b3d4a2cece012b443d617800261a023cc4d75 debuginfo(build-id) = e64fe6d2fef7de8acf7485b9e72082068fd35f3a debuginfo(build-id) = e6d5f0145483cb1e4b0bf5aa518ab3ba257a0825 debuginfo(build-id) = e6fc249b4ce3480ca2f676d53e8610b83e5c6be4 debuginfo(build-id) = e791528e09ce795efb2c6412a96cdf41ab226129 debuginfo(build-id) = e794b6505afbf54ef6e22d0369aeeacb78cc2298 debuginfo(build-id) = e7f230cd09f4db1475bea7ae35a8ec7faa19e905 debuginfo(build-id) = e817e15b2f527fa7a2b603be8927643ec738aa8d debuginfo(build-id) = e906f50b5c5690ae92d0106a1885fc85c99679af debuginfo(build-id) = ea27e9b5334c3141644e634400495f03089c4cee debuginfo(build-id) = ea3e50942a90897122f7d70fe79988cc84704b6b debuginfo(build-id) = ea7cef613fd308b5bb3ef5ba21fc51267f78c764 debuginfo(build-id) = eaafc056f7c5a83196335b43a65de48074c3f566 debuginfo(build-id) = eb5f80931f445730ae902d1612d55a9d2a0941cf debuginfo(build-id) = eb7895ed823255f1b862d40173e86af351ba275a debuginfo(build-id) = eb99d7a43d48f209ae6ca52cc879f719fcfcc701 debuginfo(build-id) = ebff74161c70870ae1909cbb7923809be2ddbda8 debuginfo(build-id) = ecfb7e01e2b0ab08ec55ba9c7a7249184db58506 debuginfo(build-id) = ef57d7b25c745390e85a1d3a6b309d3573fe1095 debuginfo(build-id) = efc12da331ae26bcaa6fa13e42014c59eef26816 debuginfo(build-id) = f00ed5a94aece54abbc8800dceeb5a8815cb021a debuginfo(build-id) = f09e0f58b78653f0959fc8f126208508124be57a debuginfo(build-id) = f227404c7b7398ecb3cdb9d17ca6767b5de38f3a debuginfo(build-id) = f250dd23d3d49d2d6d9afe5f45822a227247c00d debuginfo(build-id) = f261407811adb732523bc3b424d0719c8240afd8 debuginfo(build-id) = f2bda1058aa0ecac71495408fa45aaf43e546396 debuginfo(build-id) = f2ca1c3e0e07ae339c030d624cc072461e12f278 debuginfo(build-id) = f2f243aade28b7efc38e800f5d2bb7294eb78dd9 debuginfo(build-id) = f3788c9ae8035e736c1c476477e71537b8347ab6 debuginfo(build-id) = f38d4959e9b3df00b087a5cfdfcf8875cd6a26e2 debuginfo(build-id) = f3cf6757dba8de7da19b6d25d590def7eb7dd1ef debuginfo(build-id) = f3dc311797b7254b60e3505853c5e4613df6ec91 debuginfo(build-id) = f4bec0dcb8f6dc65dd97963a5e12ca2190c8efb1 debuginfo(build-id) = f5be92a9b1cc5270f66efb986b60decc49545545 debuginfo(build-id) = f610a70cc9a470f9b64326ca4dd6b51469e0d99c debuginfo(build-id) = f68b1fd7d96f6939f6c6f5d9f12e8109a9a18bb8 debuginfo(build-id) = f6a4df4983590823d62822738cd3b35d14cf67b8 debuginfo(build-id) = f6f561272f307ef375327add80cd072eb24e4eaa debuginfo(build-id) = f7371b0ae77fa7f7bb27a6b976f1f609ca26a548 debuginfo(build-id) = f738713b4127944132ef8876109d004fc25b3023 debuginfo(build-id) = f7542c9d6dd25712c2805a2abe101d0489b9d501 debuginfo(build-id) = f774dc103563aae70965ecd136c706fb739e7879 debuginfo(build-id) = f8044c99c1a074dc136cfa9115d492248d0faf5c debuginfo(build-id) = f8c579108b2d0e371a45710a055dd1d2983feadc debuginfo(build-id) = f8ce5db75f216618c04e39001823939955dd1495 debuginfo(build-id) = f96d1a3637fc2d07470757d809b6d6b729ea486b debuginfo(build-id) = f9b5c7511b36c7184cb41f428f76b9c4f9d62aa5 debuginfo(build-id) = f9b70b0960a7b474d9270b0776cb174e59b3d562 debuginfo(build-id) = f9f3771f87148c575a1a0c62b3c4ab8f656011b0 debuginfo(build-id) = faaaf9847709419a9fd1f1095753d8b10a8af1bf debuginfo(build-id) = fb01089475b7fc31210e27b6e77877057ce83e87 debuginfo(build-id) = fb0a22a9e529c7474a5988f4b9a0907cdea34450 debuginfo(build-id) = fb3755a99b5e0b2aa802c0b9ff6126c88fedd780 debuginfo(build-id) = fb3b0ef4d5eecc01684c70dfd799235883566013 debuginfo(build-id) = fb99f980b65b4c2e5c8caaa770fb1d73d1fa93b4 debuginfo(build-id) = fbd6dda13607cb1725526906ebc7a46cebbc7cce debuginfo(build-id) = fbda2d29236c0cae90868b194aeec0e72b481ca9 debuginfo(build-id) = fbdf4465b5cc6fca22a5b9e9f04e3b785efb6477 debuginfo(build-id) = fc1f24bbfffdfeaf300625fb2f646ccd48cd531b debuginfo(build-id) = fc312e1b0bc790e1c3e442873da58466b6db06b1 debuginfo(build-id) = fc3730c14e0442086eb10062f413c989dd1741ab debuginfo(build-id) = fcd2068c04641152d5148c1079f7d98f0935be5c debuginfo(build-id) = fcf6c4982d45de2e53ef6145e4dded5dcf014e0b debuginfo(build-id) = fd0c269af8e4b8c0eb09c5f3aca0f5942ecb8bb1 debuginfo(build-id) = fd219d93a45f757dec1564062196c557fec4766e debuginfo(build-id) = fd82be160f1b01c700880ee43054ac9d25e32e4f debuginfo(build-id) = fe3906e273c5e97b483843f798f2332e1a406ef7 debuginfo(build-id) = feb60fd12609b1a21d6452fcd7710d5321b33fcf debuginfo(build-id) = ff3f2bd69f02aec0cb2f1429f30a86e694dd226f debuginfo(build-id) = ffcd02bf00c347ee966108593564d9a7c4a09f03 ucsc-kent-utils-debuginfo = 492-1.fc46 ucsc-kent-utils-debuginfo(aarch-64) = 492-1.fc46 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: ucsc-kent-utils-debugsource(aarch-64) = 492-1.fc46 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILD/ucsc-kent-utils-492-build/BUILDROOT Wrote: /builddir/build/RPMS/ucsc-kent-utils-debugsource-492-1.fc46.aarch64.rpm Wrote: /builddir/build/RPMS/ucsc-kent-utils-492-1.fc46.aarch64.rpm Wrote: /builddir/build/RPMS/ucsc-kent-utils-debuginfo-492-1.fc46.aarch64.rpm Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.wydAbv + umask 022 + cd /builddir/build/BUILD/ucsc-kent-utils-492-build + test -d /builddir/build/BUILD/ucsc-kent-utils-492-build + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/ucsc-kent-utils-492-build + rm -rf /builddir/build/BUILD/ucsc-kent-utils-492-build + RPM_EC=0 ++ jobs -p + exit 0 Finish: rpmbuild ucsc-kent-utils-492-1.fc46.src.rpm Finish: build phase for ucsc-kent-utils-492-1.fc46.src.rpm INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-rawhide-aarch64-1790449600.407140/root/var/log/dnf5.log INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz /bin/tar: Removing leading `/' from member names INFO: Done(/var/lib/copr-rpmbuild/results/ucsc-kent-utils-492-1.fc46.src.rpm) Config(child) 35 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 Package info: { "packages": [ { "name": "ucsc-kent-utils", "epoch": null, "version": "492", "release": "1.fc46", "arch": "aarch64" }, { "name": "ucsc-kent-utils-debugsource", "epoch": null, "version": "492", "release": "1.fc46", "arch": "aarch64" }, { "name": "ucsc-kent-utils-debuginfo", "epoch": null, "version": "492", "release": "1.fc46", "arch": "aarch64" }, { "name": "ucsc-kent-utils", "epoch": null, "version": "492", "release": "1.fc46", "arch": "src" } ] } RPMResults finished