Fri Oct 10 14:18:21 UTC 2025 I: starting to build hmmer/forky/arm64 on jenkins on '2025-10-10 14:18' Fri Oct 10 14:18:21 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_1/101257/console.log Fri Oct 10 14:18:21 UTC 2025 I: Downloading source for forky/hmmer=3.4+dfsg-3 --2025-10-10 14:18:21-- http://deb.debian.org/debian/pool/main/h/hmmer/hmmer_3.4%2bdfsg-3.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1774 (1.7K) [text/prs.lines.tag] Saving to: ‘hmmer_3.4+dfsg-3.dsc’ 0K . 100% 203M=0s 2025-10-10 14:18:21 (203 MB/s) - ‘hmmer_3.4+dfsg-3.dsc’ saved [1774/1774] Fri Oct 10 14:18:21 UTC 2025 I: hmmer_3.4+dfsg-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: hmmer Binary: hmmer, hmmer-doc, hmmer-examples Architecture: any all Version: 3.4+dfsg-3 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: http://hmmer.org/ Standards-Version: 4.7.2 Vcs-Browser: https://salsa.debian.org/med-team/hmmer Vcs-Git: https://salsa.debian.org/med-team/hmmer.git Testsuite: autopkgtest Testsuite-Triggers: python3 Build-Depends: debhelper-compat (= 13), libdivsufsort-dev, python3 Package-List: hmmer deb science optional arch=any-amd64,any-i386,arm64,powerpc,ppc64,x32 hmmer-doc deb doc optional arch=all hmmer-examples deb doc optional arch=any Checksums-Sha1: 69590adb499ca8e4eea9d2ed10fb66ae42e82ea8 13297988 hmmer_3.4+dfsg.orig.tar.xz 1996bb01d664abff34eac52b5b57ef7e11d4a714 12996 hmmer_3.4+dfsg-3.debian.tar.xz Checksums-Sha256: 87ada77366ed6ab0159a0c1217f8a55cbe9a708c4a98cf644929eb3703ce3309 13297988 hmmer_3.4+dfsg.orig.tar.xz 3864769123ce5f52fca65a9fad242e1930dc813e28baca4d09075d143379deda 12996 hmmer_3.4+dfsg-3.debian.tar.xz Files: ac66418b48c613d96d43770f971a22d3 13297988 hmmer_3.4+dfsg.orig.tar.xz 1381e0ec563f438fa48b147b0c6b4335 12996 hmmer_3.4+dfsg-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQEzBAEBCgAdFiEE1Uw7+v+wQt44LaXXQc5/C58bizIFAmjagNoACgkQQc5/C58b izIqwgf/aS9ZDyRa/dCnDzVTVu9pBa/OLznAAYdanFAIiePSuVO4ACAU6JjWB14d i/1ZByuuPl86dhdeqzR4NHbMJxaJH60KPXVZhKa2I5mrYlwD6upcD3HEwkGr/SyP xBdiTlxGIxoKiO3Ct8Hbz0b9T25uyfU45OOA6kVFpjg1wxiUUzxBjh5RKJFr6ZUR hBv/ctEvkE9D456Tu3o/LcyKmM4rQIhmY+UiBx5Srs/FSNYmPIq5nJCN/lTbUlIh KfWLtCB+dWHD5VERgyuQJN3m99VWW4BPZPvp1KTjBvS4SenF/bEzj83jvamAJqZs kTy9bmptwA1V+g2W8REqTnDzbmw6iQ== =qf5Q -----END PGP SIGNATURE----- Fri Oct 10 14:18:21 UTC 2025 I: Checking whether the package is not for us Fri Oct 10 14:18:21 UTC 2025 I: Starting 1st build on remote node codethink03-arm64.debian.net. Fri Oct 10 14:18:21 UTC 2025 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Fri Oct 10 14:28:13 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Nov 12 08:41:25 -12 2026 I: pbuilder-time-stamp: 1794516085 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [hmmer_3.4+dfsg-3.dsc] I: copying [./hmmer_3.4+dfsg.orig.tar.xz] I: copying [./hmmer_3.4+dfsg-3.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./hmmer_3.4+dfsg-3.dsc: no acceptable signature found dpkg-source: info: extracting hmmer in hmmer-3.4+dfsg dpkg-source: info: unpacking hmmer_3.4+dfsg.orig.tar.xz dpkg-source: info: unpacking hmmer_3.4+dfsg-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix_manpage_extension.patch dpkg-source: info: applying use_debian_packaged_libdivsufsort.patch dpkg-source: info: applying verbose-easel dpkg-source: info: applying skip_threads_check dpkg-source: info: applying sub_make_parallel dpkg-source: info: applying spelling I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3938742/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='forky' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='d1984eb56cec418c83d9292a53901129' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='3938742' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.GvOtUe6G/pbuilderrc_3Pz9 --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.GvOtUe6G/b1 --logfile b1/build.log hmmer_3.4+dfsg-3.dsc' SUDO_GID='109' SUDO_HOME='/var/lib/jenkins' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3938742/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), libdivsufsort-dev, python3 dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 20000 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libdivsufsort-dev; however: Package libdivsufsort-dev is not installed. pbuilder-satisfydepends-dummy depends on python3; however: Package python3 is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libdivsufsort-dev{a} libdivsufsort3{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2-16{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-minimal{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 45 newly installed, 0 to remove and 0 not upgraded. Need to get 17.3 MB of archives. After unpacking 72.1 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main arm64 libexpat1 arm64 2.7.3-1 [96.5 kB] Get: 2 http://deb.debian.org/debian forky/main arm64 libpython3.13-minimal arm64 3.13.7-1 [857 kB] Get: 3 http://deb.debian.org/debian forky/main arm64 python3.13-minimal arm64 3.13.7-1 [2001 kB] Get: 4 http://deb.debian.org/debian forky/main arm64 python3-minimal arm64 3.13.7-1 [27.2 kB] Get: 5 http://deb.debian.org/debian forky/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian forky/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian forky/main arm64 tzdata all 2025b-5 [260 kB] Get: 8 http://deb.debian.org/debian forky/main arm64 libffi8 arm64 3.5.2-2 [21.5 kB] Get: 9 http://deb.debian.org/debian forky/main arm64 readline-common all 8.3-3 [74.8 kB] Get: 10 http://deb.debian.org/debian forky/main arm64 libreadline8t64 arm64 8.3-3 [169 kB] Get: 11 http://deb.debian.org/debian forky/main arm64 libpython3.13-stdlib arm64 3.13.7-1 [1895 kB] Get: 12 http://deb.debian.org/debian forky/main arm64 python3.13 arm64 3.13.7-1 [761 kB] Get: 13 http://deb.debian.org/debian forky/main arm64 libpython3-stdlib arm64 3.13.7-1 [10.2 kB] Get: 14 http://deb.debian.org/debian forky/main arm64 python3 arm64 3.13.7-1 [28.3 kB] Get: 15 http://deb.debian.org/debian forky/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 16 http://deb.debian.org/debian forky/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 17 http://deb.debian.org/debian forky/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 18 http://deb.debian.org/debian forky/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 19 http://deb.debian.org/debian forky/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 20 http://deb.debian.org/debian forky/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 21 http://deb.debian.org/debian forky/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 22 http://deb.debian.org/debian forky/main arm64 bsdextrautils arm64 2.41.2-1 [94.3 kB] Get: 23 http://deb.debian.org/debian forky/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 24 http://deb.debian.org/debian forky/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 25 http://deb.debian.org/debian forky/main arm64 m4 arm64 1.4.20-2 [315 kB] Get: 26 http://deb.debian.org/debian forky/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 27 http://deb.debian.org/debian forky/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 automake all 1:1.17-4 [862 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 30 http://deb.debian.org/debian forky/main arm64 libdebhelper-perl all 13.28 [92.4 kB] Get: 31 http://deb.debian.org/debian forky/main arm64 libtool all 2.5.4-5 [540 kB] Get: 32 http://deb.debian.org/debian forky/main arm64 dh-autoreconf all 21 [12.2 kB] Get: 33 http://deb.debian.org/debian forky/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 34 http://deb.debian.org/debian forky/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 35 http://deb.debian.org/debian forky/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 36 http://deb.debian.org/debian forky/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get: 37 http://deb.debian.org/debian forky/main arm64 dwz arm64 0.16-2 [100 kB] Get: 38 http://deb.debian.org/debian forky/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 39 http://deb.debian.org/debian forky/main arm64 libxml2-16 arm64 2.14.6+dfsg-0.1 [601 kB] Get: 40 http://deb.debian.org/debian forky/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 41 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 42 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 43 http://deb.debian.org/debian forky/main arm64 debhelper all 13.28 [941 kB] Get: 44 http://deb.debian.org/debian forky/main arm64 libdivsufsort3 arm64 2.0.1-7 [40.7 kB] Get: 45 http://deb.debian.org/debian forky/main arm64 libdivsufsort-dev arm64 2.0.1-7 [18.8 kB] Fetched 17.3 MB in 0s (79.1 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20000 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.3-1_arm64.deb ... Unpacking libexpat1:arm64 (2.7.3-1) ... Selecting previously unselected package libpython3.13-minimal:arm64. Preparing to unpack .../libpython3.13-minimal_3.13.7-1_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.7-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.7-1_arm64.deb ... Unpacking python3.13-minimal (3.13.7-1) ... Setting up libpython3.13-minimal:arm64 (3.13.7-1) ... Setting up libexpat1:arm64 (2.7.3-1) ... Setting up python3.13-minimal (3.13.7-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20334 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.7-1_arm64.deb ... Unpacking python3-minimal (3.13.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_13.0.0_all.deb ... Unpacking media-types (13.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2025b-5_all.deb ... Unpacking tzdata (2025b-5) ... Selecting previously unselected package libffi8:arm64. Preparing to unpack .../4-libffi8_3.5.2-2_arm64.deb ... Unpacking libffi8:arm64 (3.5.2-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.3-3_all.deb ... Unpacking readline-common (8.3-3) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../6-libreadline8t64_8.3-3_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.3-3) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.7-1_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.7-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.7-1_arm64.deb ... Unpacking python3.13 (3.13.7-1) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../9-libpython3-stdlib_3.13.7-1_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.13.7-1) ... Setting up python3-minimal (3.13.7-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21349 files and directories currently installed.) Preparing to unpack .../00-python3_3.13.7-1_arm64.deb ... Unpacking python3 (3.13.7-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../03-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.23.1-2+b1_arm64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../06-libuchardet0_0.0.8-2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../07-groff-base_1.23.0-9_arm64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.41.2-1_arm64.deb ... Unpacking bsdextrautils (2.41.2-1) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../09-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.13.1-1_arm64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.20-2_arm64.deb ... Unpacking m4 (1.4.20-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... 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Setting up bsdextrautils (2.41.2-1) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:arm64 (2.14.6+dfsg-0.1) ... Setting up libdebhelper-perl (13.28) ... Setting up libmagic1t64:arm64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-2) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:arm64 (0.193-3) ... Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Nov 12 20:42:01 UTC 2026. Universal Time is now: Thu Nov 12 20:42:01 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up autopoint (0.23.1-2) ... Setting up autoconf (2.72-3.1) ... Setting up libffi8:arm64 (3.5.2-2) ... Setting up dwz (0.16-2) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:arm64 (0.0.8-2) ... Setting up netbase (6.5) ... 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Processing triggers for libc-bin (2.41-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.37.1.2-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/reproducible-path/hmmer-3.4+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../hmmer_3.4+dfsg-3_source.changes dpkg-buildpackage: info: source package hmmer dpkg-buildpackage: info: source version 3.4+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Santiago Vila dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 dpkg-source: info: using options from hmmer-3.4+dfsg/debian/source/options: --extend-diff-ignore=(^|/)config.(sub|guess)$ debian/rules clean dh clean debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' rm -f testsuite/esltmp* rm -f easel/testsuite/esltmp* rm -f tutorial/MADE1.hmm.h3? rm -f config.log config.status configure find . -name Makefile -delete make[1]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' dh_clean debian/rules binary dh binary dh_update_autotools_config debian/rules override_dh_autoreconf make[1]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' AUTOHEADER=true dh_autoreconf make[1]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' CPPFLAGS="-Wdate-time -D_FORTIFY_SOURCE=2" dh_auto_configure -- --enable-threads --enable-neon ./configure --build=aarch64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --enable-threads --enable-neon configure: Configuring HMMER3 for your system. checking build system type... aarch64-unknown-linux-gnu checking host system type... aarch64-unknown-linux-gnu ./configure: line 3043: [: -gt: unary operator expected ./configure: line 3045: [: -eq: unary operator expected checking whether to compile using MPI... no checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking for gcc... (cached) gcc checking whether the compiler supports GNU C... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to enable C11 features... (cached) none needed checking how to run the C preprocessor... gcc -E checking for a BSD-compatible install... /usr/bin/install -c checking for strip... strip checking for ranlib... ranlib checking for ar... /usr/bin/ar checking whether ln -s works... yes checking for a sed that does not truncate output... /usr/bin/sed checking for egrep -e... /usr/bin/grep -E checking whether gcc is Clang... no checking whether pthreads work with "-pthread" and "-lpthread"... yes checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE checking whether more special flags are required for pthreads... no checking for PTHREAD_PRIO_INHERIT... yes checking whether gcc can compile our NEON code... yes, aarch64 flavor checking whether gcc can compile our Altivec/VMX code... no checking whether gcc can compile our SSE code... no checking whether gcc can compile our NEON code... yes, aarch64 flavor configure: Activating ARM Neon vector DP implementation checking compiler support --start-group... yes checking for gzip... /usr/bin/gzip checking for python3... yes checking for library containing clock_gettime... none required checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for endian.h... yes checking for inttypes.h... (cached) yes checking for stdint.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/types.h... (cached) yes checking for netinet/in.h... yes checking for sys/param.h... yes checking for sys/sysctl.h... no checking for arm_neon.h... yes checking for uint8_t... yes checking for uint16_t... yes checking for uint32_t... yes checking for uint64_t... yes checking for off_t... yes checking whether byte ordering is bigendian... no checking whether C compiler accepts -mlittle-endian... yes checking for __attribute__((noreturn))... yes checking for __attribute__((format))... yes checking for mkstemp... yes checking for popen... yes checking for putenv... yes checking for strcasecmp... yes checking for strsep... yes checking for times... yes checking for getpid... yes checking for sysctl... no checking for sysconf... yes checking for getcwd... yes checking for chmod... yes checking for stat... yes checking for fstat... yes checking for erfc... no checking for library containing ntohs... none required checking for library containing ntohl... none required checking for library containing htons... none required checking for library containing htonl... none required checking for library containing socket... none required checking for library containing inet_pton... none required checking for declarations of fseeko and ftello... yes checking for -Wdate-time -D_FORTIFY_SOURCE=2 option for large files... none needed configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating testsuite/Makefile config.status: creating profmark/Makefile config.status: creating src/impl_neon/Makefile config.status: creating documentation/Makefile config.status: creating documentation/man/Makefile config.status: creating documentation/userguide/Makefile config.status: creating documentation/userguide/inclusions/Makefile config.status: creating easel/Makefile config.status: creating easel/miniapps/Makefile config.status: creating easel/testsuite/Makefile config.status: creating easel/documentation/Makefile config.status: creating documentation/userguide/titlepage.tex config.status: creating documentation/userguide/titlepage_daemon.tex config.status: creating documentation/userguide/copyright.tex config.status: creating documentation/man/alimask.man config.status: creating documentation/man/hmmalign.man config.status: creating documentation/man/hmmbuild.man config.status: creating documentation/man/hmmc2.man config.status: creating documentation/man/hmmconvert.man config.status: creating documentation/man/hmmemit.man config.status: creating documentation/man/hmmer.man config.status: creating documentation/man/hmmfetch.man config.status: creating documentation/man/hmmlogo.man config.status: creating documentation/man/hmmpgmd.man config.status: creating documentation/man/hmmpgmd_shard.man config.status: creating documentation/man/hmmpress.man config.status: creating documentation/man/hmmscan.man config.status: creating documentation/man/hmmsearch.man config.status: creating documentation/man/hmmsim.man config.status: creating documentation/man/hmmstat.man config.status: creating documentation/man/jackhmmer.man config.status: creating documentation/man/makehmmerdb.man config.status: creating documentation/man/nhmmer.man config.status: creating documentation/man/nhmmscan.man config.status: creating documentation/man/phmmer.man config.status: creating easel/miniapps/esl-afetch.man config.status: creating easel/miniapps/esl-alimanip.man config.status: creating easel/miniapps/esl-alimap.man config.status: creating easel/miniapps/esl-alimask.man config.status: creating easel/miniapps/esl-alimerge.man config.status: creating easel/miniapps/esl-alipid.man config.status: creating easel/miniapps/esl-alirev.man config.status: creating easel/miniapps/esl-alistat.man config.status: creating easel/miniapps/esl-compalign.man config.status: creating easel/miniapps/esl-compstruct.man config.status: creating easel/miniapps/esl-construct.man config.status: creating easel/miniapps/esl-histplot.man config.status: creating easel/miniapps/esl-mask.man config.status: creating easel/miniapps/esl-mixdchlet.man config.status: creating easel/miniapps/esl-reformat.man config.status: creating easel/miniapps/esl-selectn.man config.status: creating easel/miniapps/esl-seqrange.man config.status: creating easel/miniapps/esl-seqstat.man config.status: creating easel/miniapps/esl-sfetch.man config.status: creating easel/miniapps/esl-shuffle.man config.status: creating easel/miniapps/esl-ssdraw.man config.status: creating easel/miniapps/esl-translate.man config.status: creating easel/miniapps/esl-weight.man config.status: creating easel/decoy_config.h config.status: creating src/p7_config.h config.status: creating easel/esl_config.h config.status: linking src/impl_neon to src/impl HMMER configuration: compiler: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -mlittle-endian -pthread host: aarch64-unknown-linux-gnu linker: -Wl,-z,relro -Wl,-z,now -flto libraries: -lpthread DP implementation: neon Now do 'make' to build HMMER, and optionally: 'make check' to run self tests, 'make install' to install programs and man pages, '(cd easel; make install)' to install Easel tools. make[1]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' dh_auto_build make -j12 make[1]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' make -C easel all make[2]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/easel' gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c easel.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_alloc.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_alphabet.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_arr2.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_arr3.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_bitfield.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_buffer.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_cluster.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_composition.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_cpu.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_dirichlet.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_distance.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_dmatrix.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_dsqdata.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_exponential.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_fileparser.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_gamma.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_gencode.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_getopts.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_gev.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_graph.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_gumbel.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_heap.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_histogram.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_hmm.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_huffman.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_hyperexp.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_iset.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_json.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_keyhash.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_lognormal.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_matrixops.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_mem.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_minimizer.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_mixdchlet.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_mixgev.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_mpi.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_msa.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_msacluster.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_msafile.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_msafile2.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_msafile_a2m.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_msafile_afa.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_msafile_clustal.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_msafile_phylip.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_msafile_psiblast.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_msafile_selex.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_msafile_stockholm.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_msashuffle.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_msaweight.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_normal.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_paml.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_quicksort.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_random.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_rand64.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_randomseq.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_ratematrix.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_recorder.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_red_black.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_regexp.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_rootfinder.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_scorematrix.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_sq.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_sqio.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_sqio_ascii.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_sqio_ncbi.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_ssi.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_stack.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_stats.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_stopwatch.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_stretchexp.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_subcmd.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_threads.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_tree.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_varint.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_vectorops.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_weibull.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_workqueue.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_wuss.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_sse.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_avx.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_avx512.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -c esl_neon.c gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -c esl_vmx.c /usr/bin/ar -r libeasel.a easel.o esl_alloc.o esl_alphabet.o esl_arr2.o esl_arr3.o esl_bitfield.o esl_buffer.o esl_cluster.o esl_composition.o esl_cpu.o esl_dirichlet.o esl_distance.o esl_dmatrix.o esl_dsqdata.o esl_exponential.o esl_fileparser.o esl_gamma.o esl_gencode.o esl_getopts.o esl_gev.o esl_graph.o esl_gumbel.o esl_heap.o esl_histogram.o esl_hmm.o esl_huffman.o esl_hyperexp.o esl_iset.o esl_json.o esl_keyhash.o esl_lognormal.o esl_matrixops.o esl_mem.o esl_minimizer.o esl_mixdchlet.o esl_mixgev.o esl_mpi.o esl_msa.o esl_msacluster.o esl_msafile.o esl_msafile2.o esl_msafile_a2m.o esl_msafile_afa.o esl_msafile_clustal.o esl_msafile_phylip.o esl_msafile_psiblast.o esl_msafile_selex.o esl_msafile_stockholm.o esl_msashuffle.o esl_msaweight.o esl_normal.o esl_paml.o esl_quicksort.o esl_random.o esl_rand64.o esl_randomseq.o esl_ratematrix.o esl_recorder.o esl_red_black.o esl_regexp.o esl_rootfinder.o esl_scorematrix.o esl_sq.o esl_sqio.o esl_sqio_ascii.o esl_sqio_ncbi.o esl_ssi.o esl_stack.o esl_stats.o esl_stopwatch.o esl_stretchexp.o esl_subcmd.o esl_threads.o esl_tree.o esl_varint.o esl_vectorops.o esl_weibull.o esl_workqueue.o esl_wuss.o esl_sse.o esl_avx.o esl_avx512.o esl_neon.o esl_vmx.o > /dev/null 2>&1 make -C miniapps all make[3]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/easel/miniapps' gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-afetch esl-afetch.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alimanip esl-alimanip.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alimap esl-alimap.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alimask esl-alimask.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alimerge esl-alimerge.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alipid esl-alipid.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alirev esl-alirev.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-alistat esl-alistat.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-compalign esl-compalign.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-compstruct esl-compstruct.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-construct esl-construct.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-histplot esl-histplot.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-mask esl-mask.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-mixdchlet esl-mixdchlet.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-reformat esl-reformat.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-selectn esl-selectn.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-seqrange esl-seqrange.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-seqstat esl-seqstat.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-sfetch esl-sfetch.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-shuffle esl-shuffle.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-ssdraw esl-ssdraw.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-translate esl-translate.c -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o esl-weight esl-weight.c -leasel -lpthread -lm gcc -I. -I.. -I. -I./.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -c cmd_alistat.c gcc -I. -I.. -I. -I./.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -c cmd_downsample.c gcc -I. -I.. -I. -I./.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -c cmd_filter.c gcc -I. -I.. -I. -I./.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -c cmd_index.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L.. -I. -I.. -I. -I./.. -o easel easel.c cmd_alistat.o cmd_downsample.o cmd_filter.o cmd_index.o -leasel -lpthread -lm make[3]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/easel/miniapps' make[2]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/easel' make -C src all make[2]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o alimask.o -c alimask.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o build.o -c build.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o cachedb.o -c cachedb.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o cachedb_shard.o -c cachedb_shard.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o emit.o -c emit.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o errors.o -c errors.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o evalues.o -c evalues.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o eweight.o -c eweight.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_decoding.o -c generic_decoding.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_fwdback.o -c generic_fwdback.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_fwdback_chk.o -c generic_fwdback_chk.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_fwdback_banded.o -c generic_fwdback_banded.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_null2.o -c generic_null2.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_msv.o -c generic_msv.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_optacc.o -c generic_optacc.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_stotrace.o -c generic_stotrace.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_viterbi.o -c generic_viterbi.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o generic_vtrace.o -c generic_vtrace.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o h2_io.o -c h2_io.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o heatmap.o -c heatmap.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmlogo.o -c hmmlogo.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmdmstr.o -c hmmdmstr.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmdmstr_shard.o -c hmmdmstr_shard.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmd_search_status.o -c hmmd_search_status.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmdwrkr.o -c hmmdwrkr.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmdwrkr_shard.o -c hmmdwrkr_shard.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmdutils.o -c hmmdutils.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmer.o -c hmmer.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o logsum.o -c logsum.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o modelconfig.o -c modelconfig.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o modelstats.o -c modelstats.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o mpisupport.o -c mpisupport.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o seqmodel.o -c seqmodel.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o tracealign.o -c tracealign.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_alidisplay.o -c p7_alidisplay.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_bg.o -c p7_bg.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_builder.o -c p7_builder.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_domain.o -c p7_domain.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_domaindef.o -c p7_domaindef.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_gbands.o -c p7_gbands.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_gmx.o -c p7_gmx.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_gmxb.o -c p7_gmxb.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_gmxchk.o -c p7_gmxchk.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_hit.o -c p7_hit.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_hmm.o -c p7_hmm.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_hmmcache.o -c p7_hmmcache.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_hmmd_search_stats.o -c p7_hmmd_search_stats.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_hmmfile.o -c p7_hmmfile.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_hmmwindow.o -c p7_hmmwindow.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_pipeline.o -c p7_pipeline.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_prior.o -c p7_prior.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_profile.o -c p7_profile.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_spensemble.o -c p7_spensemble.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_tophits.o -c p7_tophits.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_trace.o -c p7_trace.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o p7_scoredata.o -c p7_scoredata.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmpgmd2msa.o -c hmmpgmd2msa.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o fm_alphabet.o -c fm_alphabet.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o fm_general.o -c fm_general.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o fm_sse.o -c fm_sse.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o fm_ssv.o -c fm_ssv.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmalign.o -c hmmalign.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmbuild.o -c hmmbuild.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmconvert.o -c hmmconvert.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmemit.o -c hmmemit.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmfetch.o -c hmmfetch.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmpgmd.o -c hmmpgmd.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmpgmd_shard.o -c hmmpgmd_shard.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmpress.o -c hmmpress.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmscan.o -c hmmscan.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmsearch.o -c hmmsearch.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmsim.o -c hmmsim.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmstat.o -c hmmstat.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o jackhmmer.o -c jackhmmer.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o phmmer.o -c phmmer.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o nhmmer.o -c nhmmer.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o nhmmscan.o -c nhmmscan.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o makehmmerdb.o -c makehmmerdb.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmc2.o -c hmmc2.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o hmmerfm-exactmatch.o -c hmmerfm-exactmatch.c /usr/bin/ar -r libhmmer.a build.o cachedb.o cachedb_shard.o emit.o errors.o evalues.o eweight.o generic_decoding.o generic_fwdback.o generic_fwdback_chk.o generic_fwdback_banded.o generic_null2.o generic_msv.o generic_optacc.o generic_stotrace.o generic_viterbi.o generic_vtrace.o h2_io.o heatmap.o hmmlogo.o hmmdmstr.o hmmdmstr_shard.o hmmd_search_status.o hmmdwrkr.o hmmdwrkr_shard.o hmmdutils.o hmmer.o logsum.o modelconfig.o modelstats.o mpisupport.o seqmodel.o tracealign.o p7_alidisplay.o p7_bg.o p7_builder.o p7_domain.o p7_domaindef.o p7_gbands.o p7_gmx.o p7_gmxb.o p7_gmxchk.o p7_hit.o p7_hmm.o p7_hmmcache.o p7_hmmd_search_stats.o p7_hmmfile.o p7_hmmwindow.o p7_pipeline.o p7_prior.o p7_profile.o p7_spensemble.o p7_tophits.o p7_trace.o p7_scoredata.o hmmpgmd2msa.o fm_alphabet.o fm_general.o fm_sse.o fm_ssv.o > /dev/null 2>&1 make -C impl_neon libhmmer-impl.stamp make[3]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o decoding.o -c decoding.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o fwdback.o -c fwdback.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o io.o -c io.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o ssvfilter.o -c ssvfilter.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o msvfilter.o -c msvfilter.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o null2.o -c null2.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o optacc.o -c optacc.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o stotrace.o -c stotrace.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o vitfilter.o -c vitfilter.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o p7_omx.o -c p7_omx.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o p7_oprofile.o -c p7_oprofile.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -o mpi.o -c mpi.c /usr/bin/ar -r ../libhmmer.a decoding.o fwdback.o io.o ssvfilter.o msvfilter.o null2.o optacc.o stotrace.o vitfilter.o p7_omx.o p7_oprofile.o mpi.o > /dev/null 2>&1 make[3]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o alimask alimask.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmalign hmmalign.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmbuild hmmbuild.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmconvert hmmconvert.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmemit hmmemit.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmfetch hmmfetch.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmlogo hmmlogo.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmpgmd hmmpgmd.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmpgmd_shard hmmpgmd_shard.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmpress hmmpress.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmscan hmmscan.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmsearch hmmsearch.o -lhmmer -leasel -ldivsufsort -lpthread -lm ../easel/esl_scorematrix.c: In function 'esl_scorematrix_Create': ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function 'malloc' declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ ../easel/esl_scorematrix.c: In function 'esl_scorematrix_Create': ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function 'malloc' declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmsim hmmsim.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmstat hmmstat.o -lhmmer -leasel -ldivsufsort -lpthread -lm ../easel/esl_scorematrix.c: In function 'esl_scorematrix_Create': ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function 'malloc' declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o jackhmmer jackhmmer.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o phmmer phmmer.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o nhmmer nhmmer.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o nhmmscan nhmmscan.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o makehmmerdb makehmmerdb.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmc2 hmmc2.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o hmmerfm-exactmatch hmmerfm-exactmatch.o -lhmmer -leasel -ldivsufsort -lpthread -lm ../easel/esl_scorematrix.c: In function 'esl_scorematrix_Create': ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function 'malloc' declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ ../easel/esl_scorematrix.c: In function 'esl_scorematrix_Create': ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function 'malloc' declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ ../easel/esl_scorematrix.c: In function 'esl_scorematrix_Create': ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function 'malloc' declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ make[2]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/src' make -C profmark all make[2]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/profmark' gcc -I../easel -I../easel -I../src -I../src -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -o create-profmark.o -c create-profmark.c gcc -I../easel -I../easel -I../src -I../src -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -o rocplot.o -c rocplot.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L../easel -L../src -o rocplot rocplot.o -lhmmer -leasel -lpthread -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -flto -L../easel -L../src -o create-profmark create-profmark.o -lhmmer -leasel -lpthread -lm make[2]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/profmark' make[1]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' debian/rules execute_after_dh_auto_build make[1]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' /usr/bin/make tests -j 12 make[2]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' /usr/bin/make -C easel tests make[3]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/easel' gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o easel_utest -I. -I. -L. -DeslEASEL_TESTDRIVE ./easel.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_cpu_utest -I. -I. -L. -DeslCPU_TESTDRIVE ./esl_cpu.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_cluster_utest -I. -I. -L. -DeslCLUSTER_TESTDRIVE ./esl_cluster.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_alloc_utest -I. -I. -L. -DeslALLOC_TESTDRIVE ./esl_alloc.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_dirichlet_utest -I. -I. -L. -DeslDIRICHLET_TESTDRIVE ./esl_dirichlet.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_buffer_utest -I. -I. -L. -DeslBUFFER_TESTDRIVE ./esl_buffer.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_dmatrix_utest -I. -I. -L. -DeslDMATRIX_TESTDRIVE ./esl_dmatrix.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_exponential_utest -I. -I. -L. -DeslEXPONENTIAL_TESTDRIVE ./esl_exponential.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_distance_utest -I. -I. -L. -DeslDISTANCE_TESTDRIVE ./esl_distance.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_alphabet_utest -I. -I. -L. -DeslALPHABET_TESTDRIVE ./esl_alphabet.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_dsqdata_utest -I. -I. -L. -DeslDSQDATA_TESTDRIVE ./esl_dsqdata.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_bitfield_utest -I. -I. -L. -DeslBITFIELD_TESTDRIVE ./esl_bitfield.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_fileparser_utest -I. -I. -L. -DeslFILEPARSER_TESTDRIVE ./esl_fileparser.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_gencode_utest -I. -I. -L. -DeslGENCODE_TESTDRIVE ./esl_gencode.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_gamma_utest -I. -I. -L. -DeslGAMMA_TESTDRIVE ./esl_gamma.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_getopts_utest -I. -I. -L. -DeslGETOPTS_TESTDRIVE ./esl_getopts.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_graph_utest -I. -I. -L. -DeslGRAPH_TESTDRIVE ./esl_graph.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_gumbel_utest -I. -I. -L. -DeslGUMBEL_TESTDRIVE ./esl_gumbel.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_heap_utest -I. -I. -L. -DeslHEAP_TESTDRIVE ./esl_heap.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_histogram_utest -I. -I. -L. -DeslHISTOGRAM_TESTDRIVE ./esl_histogram.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_hmm_utest -I. -I. -L. -DeslHMM_TESTDRIVE ./esl_hmm.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_huffman_utest -I. -I. -L. -DeslHUFFMAN_TESTDRIVE ./esl_huffman.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_hyperexp_utest -I. -I. -L. -DeslHYPEREXP_TESTDRIVE ./esl_hyperexp.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_iset_utest -I. -I. -L. -DeslISET_TESTDRIVE ./esl_iset.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_json_utest -I. -I. -L. -DeslJSON_TESTDRIVE ./esl_json.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_keyhash_utest -I. -I. -L. -DeslKEYHASH_TESTDRIVE ./esl_keyhash.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_lognormal_utest -I. -I. -L. -DeslLOGNORMAL_TESTDRIVE ./esl_lognormal.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_matrixops_utest -I. -I. -L. -DeslMATRIXOPS_TESTDRIVE ./esl_matrixops.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_mem_utest -I. -I. -L. -DeslMEM_TESTDRIVE ./esl_mem.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_minimizer_utest -I. -I. -L. -DeslMINIMIZER_TESTDRIVE ./esl_minimizer.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_mixdchlet_utest -I. -I. -L. -DeslMIXDCHLET_TESTDRIVE ./esl_mixdchlet.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msa_utest -I. -I. -L. -DeslMSA_TESTDRIVE ./esl_msa.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msacluster_utest -I. -I. -L. -DeslMSACLUSTER_TESTDRIVE ./esl_msacluster.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_utest -I. -I. -L. -DeslMSAFILE_TESTDRIVE ./esl_msafile.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile2_utest -I. -I. -L. -DeslMSAFILE2_TESTDRIVE ./esl_msafile2.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_a2m_utest -I. -I. -L. -DeslMSAFILE_A2M_TESTDRIVE ./esl_msafile_a2m.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_afa_utest -I. -I. -L. -DeslMSAFILE_AFA_TESTDRIVE ./esl_msafile_afa.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_clustal_utest -I. -I. -L. -DeslMSAFILE_CLUSTAL_TESTDRIVE ./esl_msafile_clustal.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_phylip_utest -I. -I. -L. -DeslMSAFILE_PHYLIP_TESTDRIVE ./esl_msafile_phylip.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_psiblast_utest -I. -I. -L. -DeslMSAFILE_PSIBLAST_TESTDRIVE ./esl_msafile_psiblast.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_selex_utest -I. -I. -L. -DeslMSAFILE_SELEX_TESTDRIVE ./esl_msafile_selex.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msafile_stockholm_utest -I. -I. -L. -DeslMSAFILE_STOCKHOLM_TESTDRIVE ./esl_msafile_stockholm.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_msaweight_utest -I. -I. -L. -DeslMSAWEIGHT_TESTDRIVE ./esl_msaweight.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_normal_utest -I. -I. -L. -DeslNORMAL_TESTDRIVE ./esl_normal.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_quicksort_utest -I. -I. -L. -DeslQUICKSORT_TESTDRIVE ./esl_quicksort.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_random_utest -I. -I. -L. -DeslRANDOM_TESTDRIVE ./esl_random.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_rand64_utest -I. -I. -L. -DeslRAND64_TESTDRIVE ./esl_rand64.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_randomseq_utest -I. -I. -L. -DeslRANDOMSEQ_TESTDRIVE ./esl_randomseq.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_ratematrix_utest -I. -I. -L. -DeslRATEMATRIX_TESTDRIVE ./esl_ratematrix.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_red_black_utest -I. -I. -L. -DeslRED_BLACK_TESTDRIVE ./esl_red_black.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_recorder_utest -I. -I. -L. -DeslRECORDER_TESTDRIVE ./esl_recorder.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_regexp_utest -I. -I. -L. -DeslREGEXP_TESTDRIVE ./esl_regexp.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_scorematrix_utest -I. -I. -L. -DeslSCOREMATRIX_TESTDRIVE ./esl_scorematrix.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_rootfinder_utest -I. -I. -L. -DeslROOTFINDER_TESTDRIVE ./esl_rootfinder.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_sq_utest -I. -I. -L. -DeslSQ_TESTDRIVE ./esl_sq.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_sqio_utest -I. -I. -L. -DeslSQIO_TESTDRIVE ./esl_sqio.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_ssi_utest -I. -I. -L. -DeslSSI_TESTDRIVE ./esl_ssi.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_stack_utest -I. -I. -L. -DeslSTACK_TESTDRIVE ./esl_stack.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_stats_utest -I. -I. -L. -DeslSTATS_TESTDRIVE ./esl_stats.c -leasel -lm -lpthread ./esl_scorematrix.c: In function 'esl_scorematrix_Create': ./esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^ /usr/include/stdlib.h:672:14: note: in a call to allocation function 'malloc' declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_stretchexp_utest -I. -I. -L. -DeslSTRETCHEXP_TESTDRIVE ./esl_stretchexp.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_tree_utest -I. -I. -L. -DeslTREE_TESTDRIVE ./esl_tree.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_varint_utest -I. -I. -L. -DeslVARINT_TESTDRIVE ./esl_varint.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_vectorops_utest -I. -I. -L. -DeslVECTOROPS_TESTDRIVE ./esl_vectorops.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_weibull_utest -I. -I. -L. -DeslWEIBULL_TESTDRIVE ./esl_weibull.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_wuss_utest -I. -I. -L. -DeslWUSS_TESTDRIVE ./esl_wuss.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_sse_utest -I. -I. -L. -DeslSSE_TESTDRIVE ./esl_sse.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_avx_utest -I. -I. -L. -DeslAVX_TESTDRIVE ./esl_avx.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_avx512_utest -I. -I. -L. -DeslAVX512_TESTDRIVE ./esl_avx512.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_neon_utest -I. -I. -L. -DeslNEON_TESTDRIVE ./esl_neon.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_vmx_utest -I. -I. -L. -DeslVMX_TESTDRIVE ./esl_vmx.c -leasel -lm -lpthread /usr/bin/make -C miniapps tests make[4]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/easel/miniapps' make[4]: Nothing to be done for 'tests'. make[4]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/easel/miniapps' make[3]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/easel' /usr/bin/make -C src tests make[3]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src' /usr/bin/make -C impl_neon libhmmer-impl.stamp make[4]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' make[4]: 'libhmmer-impl.stamp' is up to date. make[4]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o itest_brute.o -c itest_brute.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_MSV_TESTDRIVE -o generic_msv_utest ./generic_msv.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7BUILD_TESTDRIVE -o build_utest ./build.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_FWDBACK_TESTDRIVE -o generic_fwdback_utest ./generic_fwdback.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_FWDBACK_CHK_TESTDRIVE -o generic_fwdback_chk_utest ./generic_fwdback_chk.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_VITERBI_TESTDRIVE -o generic_viterbi_utest ./generic_viterbi.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HMMER_TESTDRIVE -o hmmer_utest ./hmmer.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7MODELCONFIG_TESTDRIVE -o modelconfig_utest ./modelconfig.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_STOTRACE_TESTDRIVE -o generic_stotrace_utest ./generic_stotrace.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7ALIDISPLAY_TESTDRIVE -o p7_alidisplay_utest ./p7_alidisplay.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7LOGSUM_TESTDRIVE -o logsum_utest ./logsum.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7SEQMODEL_TESTDRIVE -o seqmodel_utest ./seqmodel.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7BG_TESTDRIVE -o p7_bg_utest ./p7_bg.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7DOMAIN_TESTDRIVE -o p7_domain_utest ./p7_domain.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GMX_TESTDRIVE -o p7_gmx_utest ./p7_gmx.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GMXCHK_TESTDRIVE -o p7_gmxchk_utest ./p7_gmxchk.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HIT_TESTDRIVE -o p7_hit_utest ./p7_hit.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HMMD_SEARCH_STATS_TESTDRIVE -o p7_hmmd_search_stats_utest ./p7_hmmd_search_stats.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HMM_TESTDRIVE -o p7_hmm_utest ./p7_hmm.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HMMFILE_TESTDRIVE -o p7_hmmfile_utest ./p7_hmmfile.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7PROFILE_TESTDRIVE -o p7_profile_utest ./p7_profile.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7TOPHITS_TESTDRIVE -o p7_tophits_utest ./p7_tophits.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7TRACE_TESTDRIVE -o p7_trace_utest ./p7_trace.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7SCOREDATA_TESTDRIVE -o p7_scoredata_utest ./p7_scoredata.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HMMPGMD2MSA_TESTDRIVE -o hmmpgmd2msa_utest ./hmmpgmd2msa.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HMMD_SEARCH_STATUS_TESTDRIVE -o hmmd_search_status_utest ./hmmd_search_status.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o itest_brute itest_brute.o -lhmmer -leasel -ldivsufsort -lpthread -lm /usr/bin/make -C impl_neon tests make[4]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7DECODING_TESTDRIVE -o decoding_utest ./decoding.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7FWDBACK_TESTDRIVE -o fwdback_utest ./fwdback.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7STOTRACE_TESTDRIVE -o stotrace_utest ./stotrace.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7VITFILTER_TESTDRIVE -o vitfilter_utest ./vitfilter.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7NULL2_TESTDRIVE -o null2_utest ./null2.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7MSVFILTER_TESTDRIVE -o msvfilter_utest ./msvfilter.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7IO_TESTDRIVE -o io_utest ./io.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7OPTACC_TESTDRIVE -o optacc_utest ./optacc.c -lhmmer -leasel -lm make[4]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' make[3]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/src' make[2]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' make[1]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' /usr/bin/make check -j 12 | tee debian/test_log make[2]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' /usr/bin/make -C easel tests make[3]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/easel' /usr/bin/make -C miniapps tests make[4]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/easel/miniapps' make[4]: Nothing to be done for 'tests'. make[4]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/easel/miniapps' make[3]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/easel' /usr/bin/make -C src tests make[3]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src' /usr/bin/make -C impl_neon libhmmer-impl.stamp make[4]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' make[4]: 'libhmmer-impl.stamp' is up to date. make[4]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' /usr/bin/make -C impl_neon tests make[4]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' make[4]: Nothing to be done for 'tests'. make[4]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' make[3]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/src' /usr/bin/make -C easel check make[3]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/easel' /usr/bin/make -C miniapps check make[4]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/easel/miniapps' make[4]: Nothing to be done for 'check'. make[4]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/easel/miniapps' /usr/bin/make -C testsuite check make[4]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/easel/testsuite' Running Easel test suite... exercise 1 [ easel-utest] ... ok. exercise 2 [ alloc-utest] ... ok. exercise 3 [ alphabet-utest] ... ok. exercise 4 [ avx-utest] ... ok. exercise 5 [ avx512-utest] ... ok. exercise 6 [ bitfield-utest] ... ok. exercise 7 [ buffer-utest] ... ok. exercise 8 [ cluster-utest] ... ok. exercise 9 [ cpu-utest] ... ok. exercise 10 [ dirichlet-utest] ... ok. exercise 11 [ distance-utest] ... ok. exercise 12 [ dmatrix-utest] ... ok. exercise 13 [ dsqdata-utest] ... ok. exercise 14 [ exponential-utest] ... ok. exercise 15 [ fileparser-utest] ... ok. exercise 16 [ gamma-utest] ... ok. exercise 17 [ gencode-utest] ... ok. exercise 18 [ getopts-utest] ... ok. exercise 19 [ graph-utest] ... ok. exercise 20 [ gumbel-utest] ... ok. exercise 21 [ heap-utest] ... ok. exercise 22 [ histogram-utest] ... ok. exercise 23 [ huffman-utest] ... ok. exercise 24 [ hyperexp-utest] ... ok. exercise 25 [ iset-utest] ... ok. exercise 26 [ json-utest] ... ok. exercise 27 [ keyhash-utest] ... ok. exercise 28 [ lognormal-utest] ... ok. exercise 29 [ matrixops-utest] ... ok. exercise 30 [ mem-utest] ... ok. exercise 31 [ minimizer-utest] ... ok. exercise 32 [ mixdchlet-utest] ... ok. exercise 33 [ msa-utest] ... ok. exercise 34 [ msacluster-utest] ... ok. exercise 35 [ msafile] ... ok. exercise 36 [ msafile2] ... ok. exercise 37 [ msafile-a2m] ... ok. exercise 38 [ msafile-afa] ... ok. exercise 39 [ msafile-clustal] ... ok. exercise 40 [ msafile-phylip] ... ok. exercise 41 [ msafile-psiblast] ... ok. exercise 42 [ msafile-selex] ... ok. exercise 43 [ msafile-stockholm] ... ok. exercise 44 [ msaweight-utest] ... ok. exercise 45 [ neon-utest] ... ok. exercise 46 [ normal-utest] ... ok. exercise 47 [ quicksort-utest] ... ok. exercise 48 [ random-utest] ... ok. exercise 49 [ rand64-utest] ... ok. exercise 50 [ randomseq-utest] ... ok. exercise 51 [ ratematrix-utest] ... ok. exercise 52 [ recorder-utest] ... ok. exercise 53 [ red_black-utest] ... ok. exercise 54 [ regexp-utest] ... ok. exercise 55 [ rootfinder-utest] ... ok. exercise 56 [ scorematrix-utest] ... ok. exercise 57 [ sq-utest] ... ok. exercise 58 [ sqio-utest] ... ok. exercise 59 [ sse-utest] ... ok. exercise 60 [ ssi-utest] ... ok. exercise 61 [ stack-utest] ... ok. exercise 62 [ stats-utest] ... ok. exercise 63 [ stretchexp-utest] ... ok. exercise 64 [ tree-utest] ... ok. exercise 65 [ varint-utest] ... ok. exercise 66 [ vectorops-utest] ... ok. exercise 67 [ vmx-utest] ... ok. exercise 68 [ weibull-utest] ... ok. exercise 69 [ wuss-utest] ... ok. exercise 70 [ e2] ... ok. exercise 71 [ degen-residues] ... ok. exercise 72 [ ncbi-indices] ... ok. exercise 73 [ blank-gf] ... ok. exercise 74 [ sindi] ... ok. exercise 75 [ esl-translate] ... ok. exercise 76 [ esl-afetch] ... ok. exercise 77 [ esl-alimanip] ... ok. exercise 78 [ esl-alimap] ... ok. exercise 79 [ esl-alimask] ... ok. exercise 80 [ esl-alimerge] ... ok. exercise 81 [ esl-alistat] ... ok. exercise 82 [ esl-compalign] ... ok. exercise 83 [ esl-construct] ... ok. exercise 84 [ esl-mask] ... ok. exercise 85 [ esl-seqrange] ... ok. exercise 86 [ esl-shuffle] ... ok. exercise 87 [ esl-ssdraw] ... ok. All 87 exercises at level <= 2 passed. System information: Thu Nov 12 08:48:19 -12 2026 Linux codethink03-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux make[4]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/easel/testsuite' make[3]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/easel' /usr/bin/make -C testsuite check make[3]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/testsuite' Running HMMER test suite... exercise 1 [ hmmer] ... ok. exercise 2 [ build] ... ok. exercise 3 [ generic_fwdback] ... ok. exercise 4 [ generic_msv] ... ok. exercise 5 [ generic_stotrace] ... ok. exercise 6 [ generic_viterbi] ... ok. exercise 7 [ hmmd_search_status] ... ok. exercise 8 [ logsum] ... ok. exercise 9 [ modelconfig] ... ok. exercise 10 [ seqmodel] ... ok. exercise 11 [ p7_alidisplay] ... ok. exercise 12 [ p7_bg] ... ok. exercise 13 [ p7_domain] ... ok. exercise 14 [ p7_gmx] ... ok. exercise 15 [ p7_hit] ... ok. exercise 16 [ p7_hmm] ... ok. exercise 17 [ p7_hmmfile] ... ok. exercise 18 [ p7_hmmd_search_stats] ... ok. exercise 19 [ p7_profile] ... ok. exercise 20 [ p7_tophits] ... ok. exercise 21 [ p7_trace] ... ok. exercise 22 [ p7_scoredata] ... ok. exercise 23 [ decoding] ... ok. exercise 24 [ fwdback] ... ok. exercise 25 [ io] ... ok. exercise 26 [ msvfilter] ... ok. exercise 27 [ null2] ... ok. exercise 28 [ optacc] ... ok. exercise 29 [ stotrace] ... ok. exercise 30 [ vitfilter] ... ok. exercise 31 [ hmmpgmd2msa] ... ok. exercise 32 [ hmmalign] ... ok. exercise 33 [ hmmalign/-h] ... ok. exercise 34 [ hmmalign/-o] ... ok. exercise 35 [ hmmalign/--mapali] ... ok. exercise 36 [ hmmalign/--trim] ... ok. exercise 37 [ hmmalign/--amino] ... ok. exercise 38 [ hmmalign/--informat] ... ok. exercise 39 [ hmmalign/--outformat] ... ok. exercise 40 [ hmmbuild] ... ok. exercise 41 [ build/-h] ... ok. exercise 42 [ build/-n] ... ok. exercise 43 [ build/-o] ... ok. exercise 44 [ build/-O] ... ok. exercise 45 [ build/--amino] ... ok. exercise 46 [ build/--dna] ... ok. exercise 47 [ build/--rna] ... ok. exercise 48 [ build/--fast] ... ok. exercise 49 [ build/--hand] ... ok. exercise 50 [ build/--symfrac] ... ok. exercise 51 [ build/--fragthresh] ... ok. exercise 52 [ build/--wpb] ... ok. exercise 53 [ build/--wgsc] ... ok. exercise 54 [ build/--wblosum] ... ok. exercise 55 [ build/--wnone] ... ok. exercise 56 [ build/--wid] ... ok. exercise 57 [ build/--eent] ... ok. exercise 58 [ build/--eclust] ... ok. exercise 59 [ build/--enone] ... ok. exercise 60 [ build/--eset] ... ok. exercise 61 [ build/--ere] ... ok. exercise 62 [ build/--esigma] ... ok. exercise 63 [ build/--eid] ... ok. exercise 64 [ build/--pnone] ... ok. exercise 65 [ build/--plaplace] ... ok. exercise 66 [ build/--EmL] ... ok. exercise 67 [ build/--EmN] ... ok. exercise 68 [ build/--EvL] ... ok. exercise 69 [ build/--EvN] ... ok. exercise 70 [ build/--EfL] ... ok. exercise 71 [ build/--EfN] ... ok. exercise 72 [ build/--Eft] ... ok. exercise 73 [ build/--informat] ... ok. exercise 74 [ build/--seed] ... ok. exercise 75 [ search] ... ok. exercise 76 [ search/-h] ... ok. exercise 77 [ search/-o] ... ok. exercise 78 [ search/-A] ... ok. exercise 79 [ search/--tblout] ... ok. exercise 80 [ search/--domtblout] ... ok. exercise 81 [ search/--pfamtblout] ... ok. exercise 82 [ search/--acc] ... ok. exercise 83 [ search/--noali] ... ok. exercise 84 [ search/--notextw] ... ok. exercise 85 [ search/--textw] ... ok. exercise 86 [ search/-E] ... ok. exercise 87 [ search/-T] ... ok. exercise 88 [ search/--domE] ... ok. exercise 89 [ search/--domT] ... ok. exercise 90 [ search/--incE] ... ok. exercise 91 [ search/--incT] ... ok. exercise 92 [ search/--incdomE] ... ok. exercise 93 [ search/--incdomT] ... ok. exercise 94 [ search/--cut_ga] ... ok. exercise 95 [ search/--cut_nc] ... ok. exercise 96 [ search/--cut_tc] ... ok. exercise 97 [ search/--max] ... ok. exercise 98 [ search/--F1] ... ok. exercise 99 [ search/--F2] ... ok. exercise 100 [ search/--F3] ... ok. exercise 101 [ search/--nobias] ... ok. exercise 102 [ search/--nonull2] ... ok. exercise 103 [ search/-Z] ... ok. exercise 104 [ search/--domZ] ... ok. exercise 105 [ search/--seed] ... ok. exercise 106 [ search/--tformat] ... ok. exercise 107 [ hmmscan] ... ok. exercise 108 [ scan/-h] ... ok. exercise 109 [ scan/-o] ... ok. exercise 110 [ scan/--tblout] ... ok. exercise 111 [ scan/--domtblout] ... ok. exercise 112 [ scan/--pfamtblout] ... ok. exercise 113 [ scan/--acc] ... ok. exercise 114 [ scan/--noali] ... ok. exercise 115 [ scan/--notextw] ... ok. exercise 116 [ scan/--textw] ... ok. exercise 117 [ scan/-E] ... ok. exercise 118 [ scan/-T] ... ok. exercise 119 [ scan/--domE] ... ok. exercise 120 [ scan/--domT] ... ok. exercise 121 [ scan/--incE] ... ok. exercise 122 [ scan/--incT] ... ok. exercise 123 [ scan/--incdomE] ... ok. exercise 124 [ scan/--incdomT] ... ok. exercise 125 [ scan/--incdomT] ... ok. exercise 126 [ scan/--cut_ga] ... ok. exercise 127 [ scan/--cut_nc] ... ok. exercise 128 [ scan/--cut_tc] ... ok. exercise 129 [ scan/--max] ... ok. exercise 130 [ scan/--F1] ... ok. exercise 131 [ scan/--F2] ... ok. exercise 132 [ scan/--F3] ... ok. exercise 133 [ scan/--nobias] ... ok. exercise 134 [ scan/--nonull2] ... ok. exercise 135 [ scan/-Z] ... ok. exercise 136 [ scan/--domZ] ... ok. exercise 137 [ scan/--seed] ... ok. exercise 138 [ scan/--qformat] ... ok. exercise 139 [ scan/--cpu] ... ok. exercise 140 [ jackhmmer] ... ok. exercise 141 [ j/-h] ... ok. exercise 142 [ j/-N] ... ok. exercise 143 [ j/-o] ... ok. exercise 144 [ j/-A] ... ok. exercise 145 [ j/--tblout] ... ok. exercise 146 [ j/--domtblout] ... ok. exercise 147 [ j/--chkhmm] ... ok. exercise 148 [ j/--chkali] ... ok. exercise 149 [ j/--acc] ... ok. exercise 150 [ j/--noali] ... ok. exercise 151 [ j/--notextw] ... ok. exercise 152 [ j/--textw] ... ok. exercise 153 [ j/--popen] ... ok. exercise 154 [ j/--pextend] ... ok. exercise 155 [ j/--mxfile] ... ok. exercise 156 [ j/-E] ... ok. exercise 157 [ j/-T] ... ok. exercise 158 [ j/--domE] ... ok. exercise 159 [ j/--domT] ... ok. exercise 160 [ j/--incE] ... ok. exercise 161 [ j/--incT] ... ok. exercise 162 [ j/--incdomE] ... ok. exercise 163 [ j/--incdomT] ... ok. exercise 164 [ j/--max] ... ok. exercise 165 [ j/--F1] ... ok. exercise 166 [ j/--F2] ... ok. exercise 167 [ j/--F3] ... ok. exercise 168 [ j/--nobias] ... ok. exercise 169 [ j/--EmL] ... ok. exercise 170 [ j/--EmN] ... ok. exercise 171 [ j/--EvL] ... ok. exercise 172 [ j/--EvN] ... ok. exercise 173 [ j/--EfL] ... ok. exercise 174 [ j/--EfN] ... ok. exercise 175 [ j/--Eft] ... ok. exercise 176 [ j/--nonull2] ... ok. exercise 177 [ j/-Z] ... ok. exercise 178 [ j/--domZ] ... ok. exercise 179 [ j/--seed] ... ok. exercise 180 [ j/--qformat] ... ok. exercise 181 [ j/--tformat] ... ok. exercise 182 [ phmmer] ... ok. exercise 183 [ phmmer/-h] ... ok. exercise 184 [ phmmer/-o] ... ok. exercise 185 [ phmmer/-A] ... ok. exercise 186 [ phmmer/--tblout] ... ok. exercise 187 [ phmmer/--domtblout] ... ok. exercise 188 [ phmmer/--pfamtblout] ... ok. exercise 189 [ phmmer/--acc] ... ok. exercise 190 [ phmmer/--noali] ... ok. exercise 191 [ phmmer/--notextw] ... ok. exercise 192 [ phmmer/--textw] ... ok. exercise 193 [ phmmer/--popen] ... ok. exercise 194 [ phmmer/--pextend] ... ok. exercise 195 [ phmmer/--mxfile] ... ok. exercise 196 [ phmmer/-E] ... ok. exercise 197 [ phmmer/-T] ... ok. exercise 198 [ phmmer/--domE] ... ok. exercise 199 [ phmmer/--domT] ... ok. exercise 200 [ phmmer/--incE] ... ok. exercise 201 [ phmmer/--incT] ... ok. exercise 202 [ phmmer/--incdomE] ... ok. exercise 203 [ phmmer/--incdomT] ... ok. exercise 204 [ phmmer/--max] ... ok. exercise 205 [ phmmer/--F1] ... ok. exercise 206 [ phmmer/--F2] ... ok. exercise 207 [ phmmer/--F3] ... ok. exercise 208 [ phmmer/--nobias] ... ok. exercise 209 [ phmmer/--EmL] ... ok. exercise 210 [ phmmer/--EmN] ... ok. exercise 211 [ phmmer/--EvL] ... ok. exercise 212 [ phmmer/--EvN] ... ok. exercise 213 [ phmmer/--EfL] ... ok. exercise 214 [ phmmer/--EfN] ... ok. exercise 215 [ phmmer/--Eft] ... ok. exercise 216 [ phmmer/--nonull2] ... ok. exercise 217 [ phmmer/-Z] ... ok. exercise 218 [ phmmer/--domZ] ... ok. exercise 219 [ phmmer/--seed] ... ok. exercise 220 [ phmmer/--qformat] ... ok. exercise 221 [ phmmer/--tformat] ... ok. exercise 222 [ nhmmer] ... ok. exercise 223 [ nhmmer/-h] ... ok. exercise 224 [ nhmmer/-o] ... ok. exercise 225 [ nhmmer/-A] ... ok. exercise 226 [ nhmmer/--tblout] ... ok. exercise 227 [ nhmmer/--dfamtblout] ... ok. exercise 228 [ nhmmer/--acc] ... ok. exercise 229 [ nhmmer/--noali] ... ok. exercise 230 [ nhmmer/--notextw] ... ok. exercise 231 [ nhmmer/--textw] ... ok. exercise 232 [ nhmmer/-E] ... ok. exercise 233 [ nhmmer/-T] ... ok. exercise 234 [ nhmmer/--incE] ... ok. exercise 235 [ nhmmer/--incT] ... ok. exercise 236 [ nhmmer/--max] ... ok. exercise 237 [ nhmmer/--F1] ... ok. exercise 238 [ nhmmer/--F2] ... ok. exercise 239 [ nhmmer/--F3] ... ok. exercise 240 [ nhmmer/--nobias] ... ok. exercise 241 [ nhmmer/--nonull2] ... ok. exercise 242 [ nhmmer/-Z] ... ok. exercise 243 [ nhmmer/--seed] ... ok. exercise 244 [ nhmmscan] ... ok. exercise 245 [ nhmmscan/-h] ... ok. exercise 246 [ nhmmscan/-o] ... ok. exercise 247 [ nhmmscan/--tblout] ... ok. exercise 248 [nhmmscan/--dfamtblout] ... ok. exercise 249 [ nhmmscan/--acc] ... ok. exercise 250 [ nhmmscan/--noali] ... ok. exercise 251 [ nhmmscan/--notextw] ... ok. exercise 252 [ nhmmscan/--textw] ... ok. exercise 253 [ nhmmscan/-E] ... ok. exercise 254 [ nhmmscan/-T] ... ok. exercise 255 [ nhmmscan/--incE] ... ok. exercise 256 [ nhmmscan/--incT] ... ok. exercise 257 [ nhmmscan/--max] ... ok. exercise 258 [ nhmmscan/--F1] ... ok. exercise 259 [ nhmmscan/--F2] ... ok. exercise 260 [ nhmmscan/--F3] ... ok. exercise 261 [ nhmmscan/--nobias] ... ok. exercise 262 [ nhmmscan/--nonull2] ... ok. exercise 263 [ nhmmscan/-Z] ... ok. exercise 264 [ nhmmscan/--seed] ... ok. exercise 265 [ hmmemit] ... ok. exercise 266 [ hmmemit/-h] ... ok. exercise 267 [ hmmemit/-c] ... ok. exercise 268 [ hmmemit/-o] ... ok. exercise 269 [ hmmemit/-p] ... ok. exercise 270 [ hmmemit/-N] ... ok. exercise 271 [ hmmemit/-L] ... ok. exercise 272 [ hmmemit/--local] ... ok. exercise 273 [ hmmemit/--unilocal] ... ok. exercise 274 [ hmmemit/--glocal] ... ok. exercise 275 [ hmmemit/--uniglocal] ... ok. exercise 276 [ hmmfetch] ... ok. exercise 277 [ hmmstat] ... ok. exercise 278 [ hmmlogo] ... ok. exercise 279 [ hmmconvert] ... ok. exercise 280 [ hmmsim] ... ok. exercise 281 [ hmmbuild_variation] ... ok. exercise 282 [ hmmscan_variation] ... ok. exercise 283 [ hmmsearch_variation] ... ok. exercise 284 [ phmmer_variation] ... ok. exercise 285 [ mapali] ... ok. exercise 286 [ fragments] ... ok. exercise 287 [ nonresidues] ... ok. exercise 288 [ opt-annotation] ... ok. exercise 289 [ dup-names] ... ok. exercise 290 [ mapali-again] ... ok. exercise 291 [ delete-corruption] ... ok. exercise 292 [ msa-integrity] ... ok. exercise 293 [ hmmemit-consensus] ... ok. exercise 294 [ hmmconvert] ... ok. exercise 295 [ stdin_pipes] ... ok. exercise 296 [ nhmmer_generic] ... ok. exercise 297 [ hmmpgmd_ga] ... ok. exercise 298 [ rewind] ... ok. exercise 299 [ hmmpgmd_shard_ga] ... ok. exercise 300 [ bad-fasta] ... ok. exercise 301 [ brute-itest] ... ok. exercise 302 [ hmmpress-itest] ... ok. exercise 303 [ h39] ... ok. exercise 304 [ h45] ... ok. exercise 305 [ h50] ... ok. exercise 306 [ h82] ... ok. exercise 307 [ iss159] ... ok. All 307 exercises at level <= 2 passed. System information: Thu Nov 12 08:48:46 -12 2026 Linux codethink03-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux make[3]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/testsuite' make[2]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' if tail -n 6 debian/test_log | head -n 1 | grep -q FAILED ; then false ; fi make[1]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install make -j12 install DESTDIR=/build/reproducible-path/hmmer-3.4\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' make -C easel all make[2]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/easel' make -C miniapps all make[3]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/easel/miniapps' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/easel/miniapps' make[2]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/easel' make -C src all make[2]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src' make -C impl_neon libhmmer-impl.stamp make[3]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' make[3]: 'libhmmer-impl.stamp' is up to date. make[3]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' make[2]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/src' make -C profmark all make[2]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/profmark' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/profmark' if [ ! -d /build/reproducible-path/hmmer-3.4+dfsg/debian/tmp/usr/bin ]; then /usr/bin/install -c -d /build/reproducible-path/hmmer-3.4+dfsg/debian/tmp/usr/bin; fi if [ ! -d /build/reproducible-path/hmmer-3.4+dfsg/debian/tmp/usr/share/man/man1 ]; then /usr/bin/install -c -d /build/reproducible-path/hmmer-3.4+dfsg/debian/tmp/usr/share/man/man1; fi make -C src install make[2]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src' for file in alimask hmmalign hmmbuild hmmconvert hmmemit hmmfetch hmmlogo hmmpgmd hmmpgmd_shard hmmpress hmmscan hmmsearch hmmsim hmmstat jackhmmer phmmer nhmmer nhmmscan makehmmerdb; do \ /usr/bin/install -c -m 0755 $file /build/reproducible-path/hmmer-3.4+dfsg/debian/tmp/usr/bin/ ;\ done make[2]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/src' make -C documentation install make[2]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/documentation' make -C man install make[3]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/documentation/man' for file in hmmer hmmalign hmmbuild hmmconvert hmmemit hmmfetch hmmlogo hmmpgmd hmmpgmd_shard hmmpress hmmscan hmmsearch hmmsim hmmstat jackhmmer makehmmerdb phmmer nhmmer nhmmscan alimask; do \ /usr/bin/install -c -m 0664 $file.man /build/reproducible-path/hmmer-3.4+dfsg/debian/tmp/usr/share/man/man1/${file}.1 ;\ done make[3]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/documentation/man' make[2]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/documentation' make[1]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' debian/rules execute_after_dh_auto_install make[1]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' mkdir -p /build/reproducible-path/hmmer-3.4+dfsg/debian/hmmer/usr/lib/aarch64-linux-gnu/hmmer/ cp src/hmmc2 /build/reproducible-path/hmmer-3.4+dfsg/debian/hmmer/usr/lib/aarch64-linux-gnu/hmmer/ make[1]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' dh_install dh_installdocs dh_installchangelogs debian/rules execute_after_dh_installexamples make[1]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' mkdir -p /build/reproducible-path/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples/src/impl find src/ -maxdepth 1 -name "*_utest" -exec cp \{\} /build/reproducible-path/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples/src/ \; find src/impl_sse -name "*_utest" -exec cp \{\} /build/reproducible-path/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples/src/impl \; cp src/itest_brute /build/reproducible-path/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples/src cp src/hmmpress.itest.pl /build/reproducible-path/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples/src cp -aR testsuite /build/reproducible-path/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples find easel -name "*.o" -delete cp -aR easel /build/reproducible-path/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples cp -aR tutorial /build/reproducible-path/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples find /build/reproducible-path/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples -name 'Makefile' | xargs sed -i "s^/build/reproducible-path/hmmer-3.4+dfsg^.^g" find /build/reproducible-path/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples -name "esltmp*" -delete make[1]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' dh_installman dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' dh_compress -Xtutorial/ make[1]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' dh_fixperms debian/rules execute_after_dh_fixperms make[1]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' find debian -name .dropbox.attr -delete find debian -name "*.fa" -executable -exec chmod -x \{\} \; find /build/reproducible-path/hmmer-3.4+dfsg/debian/hmmer-examples/usr/share/doc/hmmer/examples -name "*.man" -exec chmod -x \{\} \; make[1]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'hmmer-dbgsym' in '../hmmer-dbgsym_3.4+dfsg-3_arm64.deb'. dpkg-deb: building package 'hmmer-examples' in '../hmmer-examples_3.4+dfsg-3_arm64.deb'. dpkg-deb: building package 'hmmer' in '../hmmer_3.4+dfsg-3_arm64.deb'. dpkg-deb: building package 'hmmer-doc' in '../hmmer-doc_3.4+dfsg-3_all.deb'. dpkg-genbuildinfo --build=binary -O../hmmer_3.4+dfsg-3_arm64.buildinfo dpkg-genchanges --build=binary -O../hmmer_3.4+dfsg-3_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from hmmer-3.4+dfsg/debian/source/options: --extend-diff-ignore=(^|/)config.(sub|guess)$ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/3938742 and its subdirectories I: Current time: Thu Nov 12 08:50:32 -12 2026 I: pbuilder-time-stamp: 1794516632 Fri Oct 10 14:28:14 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink04-arm64.debian.net. Fri Oct 10 14:28:14 UTC 2025 I: Preparing to do remote build '2' on codethink04-arm64.debian.net. Fri Oct 10 14:32:10 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. Fri Oct 10 14:32:11 UTC 2025 I: hmmer_3.4+dfsg-3_arm64.changes: Format: 1.8 Date: Mon, 29 Sep 2025 14:45:00 +0200 Source: hmmer Binary: hmmer hmmer-dbgsym hmmer-doc hmmer-examples Architecture: arm64 all Version: 3.4+dfsg-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Santiago Vila Description: hmmer - profile hidden Markov models for protein sequence analysis hmmer-doc - profile hidden Markov models for protein sequence analysis (docs) hmmer-examples - profile hidden Markov models for protein sequence analysis (examp Closes: 1103312 Changes: hmmer (3.4+dfsg-3) unstable; urgency=medium . * Team upload. . [ Michael R. Crusoe ] * d/rules: use DEB_BUILD_OPTION_PARALLEL instead of nproc to respect Debian Policy 4.9.1. . [ Santiago Vila ] * d/rules: Put V=VERBOSE at the beginning to be used in all targets. * d/rules: Do not filter nocheck in override_dh_auto_test, dh already does that. * d/rules: make tests after dh_auto_build, required by dh_installexamples. Fixes FTBFS when built with nocheck build profile. Closes: #1103312. * d/rules: Use execute_after_* where possible. * d/salsa-ci.yml: Use the simplified form. * d/salsa-ci.yml: Disable reprotest job, it does not work. * d/salsa-ci.yml: Enable nocheck build profile job. * d/control: Drop "Rules-Required-Root: no", no longer needed. * d/control: Update standards-version. Checksums-Sha1: 6a32dfd7e367277a7bb6aae12790b830ef7bd18a 16979712 hmmer-dbgsym_3.4+dfsg-3_arm64.deb ea620301cf297093c49a9b6b2738ed5abcbdab0d 773060 hmmer-doc_3.4+dfsg-3_all.deb e10f8b2d64e16a5f1533f8915ff32c6e767c92ce 30594976 hmmer-examples_3.4+dfsg-3_arm64.deb 07e1129f9987433a7ef4e327995f50ec93574cf8 5832 hmmer_3.4+dfsg-3_arm64.buildinfo 2cd8ced0acad14f59a47884f580d43b41029a1f4 945244 hmmer_3.4+dfsg-3_arm64.deb Checksums-Sha256: eac9088313d8821bf3c051d16b3e62b365f6dc6814feb7c3b04e7302258922c2 16979712 hmmer-dbgsym_3.4+dfsg-3_arm64.deb 46e50bcb9e04540ca01794965d07bcae4e23b69c318bd83846e01f440f54e5af 773060 hmmer-doc_3.4+dfsg-3_all.deb 56cb643f3e1395684ccb71716e6e83f290137dd9fac74924c46eca3de37c4b75 30594976 hmmer-examples_3.4+dfsg-3_arm64.deb 9da614b070a7fb2bb7b1983a57ff0853d0bb6649f3a422cf0b3bdbd50ae18cd7 5832 hmmer_3.4+dfsg-3_arm64.buildinfo b429acde958260e2ecbc7f46210a271c6c11b3d6066b2a8d72c4345572cd3561 945244 hmmer_3.4+dfsg-3_arm64.deb Files: a4d44933a9c35650f213f040d35ad5ff 16979712 debug optional hmmer-dbgsym_3.4+dfsg-3_arm64.deb ce7213b56ada7714a7cb94a4da4ca161 773060 doc optional hmmer-doc_3.4+dfsg-3_all.deb a7de954625bc830fc52b4b3d8ae4af99 30594976 doc optional hmmer-examples_3.4+dfsg-3_arm64.deb 20912b1870a8390e8d4b1987d1de9526 5832 science optional hmmer_3.4+dfsg-3_arm64.buildinfo bf12b15a36101f1009bd6271060c6812 945244 science optional hmmer_3.4+dfsg-3_arm64.deb Fri Oct 10 14:32:11 UTC 2025 I: diffoscope 306 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_1-101257.service; invocation ID: 88b3230725f642ebb5445dce15b59746 # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.GvOtUe6G/hmmer_3.4+dfsg-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.GvOtUe6G/hmmer_3.4+dfsg-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.GvOtUe6G/hmmer_3.4+dfsg-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.GvOtUe6G/b1/hmmer_3.4+dfsg-3_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.GvOtUe6G/b2/hmmer_3.4+dfsg-3_arm64.changes ## close_archive (total time: 0.000s) 0.000s 6 calls diffoscope.comparators.xz.XzContainer 0.000s 2 calls diffoscope.comparators.deb.DebContainer 0.000s 4 calls diffoscope.comparators.tar.TarContainer 0.000s 2 calls diffoscope.comparators.deb.DebTarContainer 0.000s 2 calls diffoscope.comparators.ar.ArContainer 0.000s 2 calls diffoscope.comparators.gzip.GzipContainer ## command (total time: 12.200s) 7.212s 3199 calls diff 3.287s 32508 calls readelf 0.866s 6 calls xz 0.515s 924 calls strings 0.085s 2 calls gzip 0.066s 11 calls nm 0.057s 27 calls cmp 0.056s 27 calls cmp (external) 0.049s 1848 calls objdump 0.005s 85 calls cmp (internal) 0.003s 168 calls objcopy ## compare_files (cumulative) (total time: 168.997s) 23.820s 1 call abc.DotChangesFile 23.759s 1 call abc.DebFile 23.657s 2 calls abc.XzFile 22.744s 1 call abc.DebDataTarFile 21.977s 1 call abc.GzipFile 21.886s 1 call abc.ArFile 21.507s 84 calls abc.ElfFile 4.999s 756 calls diffoscope.comparators.elf.ElfSection 2.935s 84 calls diffoscope.comparators.elf.ElfCodeSection 1.671s 252 calls diffoscope.comparators.elf.ElfStringSection 0.028s 1 call abc.TarFile 0.012s 1 call abc.Md5sumsFile ## container_extract (total time: 1.350s) 0.866s 6 calls diffoscope.comparators.xz.XzContainer 0.287s 1482 calls diffoscope.comparators.deb.DebTarContainer 0.085s 2 calls diffoscope.comparators.gzip.GzipContainer 0.074s 8 calls diffoscope.comparators.deb.DebContainer 0.036s 168 calls diffoscope.comparators.ar.ArContainer 0.003s 6 calls diffoscope.comparators.tar.TarContainer ## diff (total time: 6.080s) 6.080s 10509 calls linediff ## has_same_content_as (total time: 0.071s) 0.035s 84 calls abc.ElfFile 0.018s 4 calls abc.DebFile 0.013s 1 call abc.DebDataTarFile 0.003s 756 calls diffoscope.comparators.elf.ElfSection 0.001s 252 calls diffoscope.comparators.elf.ElfStringSection 0.000s 84 calls diffoscope.comparators.elf.ElfCodeSection 0.000s 2 calls abc.Md5sumsFile 0.000s 2 calls abc.TextFile 0.000s 1 call diffoscope.comparators.binary.FilesystemFile 0.000s 2 calls abc.XzFile 0.000s 1 call abc.DotChangesFile 0.000s 1 call abc.TarFile 0.000s 1 call abc.GzipFile 0.000s 1 call abc.ArFile ## main (total time: 114.053s) 114.050s 2 calls outputs 0.004s 1 call cleanup ## open_archive (total time: 0.000s) 0.000s 6 calls diffoscope.comparators.xz.XzContainer 0.000s 4 calls diffoscope.comparators.tar.TarContainer 0.000s 2 calls diffoscope.comparators.deb.DebContainer 0.000s 2 calls diffoscope.comparators.ar.ArContainer 0.000s 2 calls diffoscope.comparators.deb.DebTarContainer 0.000s 2 calls diffoscope.comparators.gzip.GzipContainer ## output (total time: 89.687s) 89.659s 1 call html 0.014s 1 call text 0.013s 1 call json ## recognizes (total time: 0.519s) 0.309s 12 calls diffoscope.comparators.binary.FilesystemFile 0.153s 5630 calls diffoscope.comparators.utils.libarchive.LibarchiveMember 0.036s 216 calls diffoscope.comparators.debian.DebControlMember 0.021s 384 calls diffoscope.comparators.utils.archive.ArchiveMember ## specialize (total time: 0.787s) 0.787s 1191 calls specialize Finished with result: success Main processes terminated with: code=exited, status=1/FAILURE Service runtime: 1min 54.310s CPU time consumed: 2min 2.272s Memory peak: 298.5M (swap: 0B) Fri Oct 10 14:34:06 UTC 2025 W: Diffoscope claims the build is reproducible, but there is a diffoscope file. Please investigate. Fri Oct 10 14:34:06 UTC 2025 E: hmmer failed to build reproducibly in forky on arm64. Fri Oct 10 14:34:07 UTC 2025 I: Removing signed hmmer_3.4+dfsg-3_arm64.buildinfo.asc files: removed './b1/hmmer_3.4+dfsg-3_arm64.buildinfo.asc' removed './b2/hmmer_3.4+dfsg-3_arm64.buildinfo.asc'