Thu May 9 19:02:34 UTC 2024 I: starting to build infernal/trixie/amd64 on jenkins on '2024-05-09 19:02' Thu May 9 19:02:34 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_38/9070/console.log Thu May 9 19:02:34 UTC 2024 I: Downloading source for trixie/infernal=1.1.5-2 --2024-05-09 19:02:34-- http://deb.debian.org/debian/pool/main/i/infernal/infernal_1.1.5-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2136 (2.1K) [text/prs.lines.tag] Saving to: ‘infernal_1.1.5-2.dsc’ 0K .. 100% 270M=0s 2024-05-09 19:02:34 (270 MB/s) - ‘infernal_1.1.5-2.dsc’ saved [2136/2136] Thu May 9 19:02:34 UTC 2024 I: infernal_1.1.5-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: infernal Binary: infernal, infernal-doc Architecture: any-amd64 any-i386 arm64 all Version: 1.1.5-2 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Andreas Tille Homepage: http://eddylab.org/infernal/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/infernal Vcs-Git: https://salsa.debian.org/med-team/infernal.git Testsuite: autopkgtest Testsuite-Triggers: python3 Build-Depends: debhelper-compat (= 13), libperl4-corelibs-perl, python3 Package-List: infernal deb science optional arch=any-amd64,any-i386,arm64 infernal-doc deb doc optional arch=all Checksums-Sha1: 0b19317f019599ddd9da9263554fced2c40ca9a8 31300142 infernal_1.1.5.orig.tar.gz 62f97fd6be92a4c7afb6de9e4dc5ab6074d5efdd 10228 infernal_1.1.5-2.debian.tar.xz Checksums-Sha256: ad4ddae02f924ca7c85bc8c4a79c9f875af8df96aeb726702fa985cbe752497f 31300142 infernal_1.1.5.orig.tar.gz f1a939cbdf5be7d9f6e3e0033b203759549b5c02d3e0161ad6c37fb2bfd8b0ff 10228 infernal_1.1.5-2.debian.tar.xz Files: 780bab55b34cfa6f090f4a4badfd1ed8 31300142 infernal_1.1.5.orig.tar.gz f2969034353accf77a7e8dc79e83fdb7 10228 infernal_1.1.5-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmUFtKgACgkQPCZ2P2xn 5uLSBA/8CyzRjl43NFcyRogIS0etV1Db9/R5JeefMCD4FHKo/xwk4iUf3BLuLhjf eJiTXH74unbXLDggJzR228/I0bdaxgK2JkEDK/boZKA+TLjya+JnvFAHKJofWPSD A/vftHPBNTu3Lv4TvwsIp+b5Eqx7gb0nV0fAYVO1G3RrG2e8xbVx7kbRFs8RrK0J MQvaQXGJLWhxmrfUjluqaMzDX2veVpTqeQKK4d8MKpw7KqQ/xnzomVWDHVEkAwF4 +nnRVOVMRvwR10TqlbRqkN0tG1x1rxrVYFhY17hRmtFBEla5b+0S4Ml3GyVHObXH 1dJon1z2ojPJVuMRQjj+b26oDZigC/PWTTy3zYdg32KpNyedGRZlTs8uiay8dq4B gq1ge4C/+h/dsMZ/msirfBg48O/8YORKw0fH278IwVpJCmiygpY7h534Q2WS7kO6 I/Bor+XnWP8PFQlHvCf739UTkgOghMMahD/yYzhagGnYv5KTDCErkrftn0rIi0QJ 4F0fMsLWxnDEN4znKkcXfgSsO0H6lDF+sQ3L3e2axwxdOP+71CD8k5NJJUycVbC2 90lRWoGmEOI2DqrYwtJ15QzrrXM/PJrVylpB4Mvs79KAWNK9/VJuC5G7h95CuGlG n1yaJKJC8pyMa73h9te8yOeAL23gICDSGVWn8tIS3LiBTtyH0wA= =rvA6 -----END PGP SIGNATURE----- Thu May 9 19:02:34 UTC 2024 I: Checking whether the package is not for us Thu May 9 19:02:34 UTC 2024 I: Starting 1st build on remote node infom02-amd64.debian.net. Thu May 9 19:02:34 UTC 2024 I: Preparing to do remote build '1' on infom02-amd64.debian.net. Thu May 9 19:11:03 UTC 2024 I: Deleting $TMPDIR on infom02-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Jun 11 13:25:37 -12 2025 I: pbuilder-time-stamp: 1749691537 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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 [infernal_1.1.5-2.dsc] I: copying [./infernal_1.1.5.orig.tar.gz] I: copying [./infernal_1.1.5-2.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Sep 16 13:59:04 2023 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./infernal_1.1.5-2.dsc: no acceptable signature found dpkg-source: info: extracting infernal in infernal-1.1.5 dpkg-source: info: unpacking infernal_1.1.5.orig.tar.gz dpkg-source: info: unpacking infernal_1.1.5-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening dpkg-source: info: applying reproducible_build.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2353825/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='c4d7481163fc48398210b45985a93812' 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='2353825' 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.bv1yvPdz/pbuilderrc_mpBh --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.bv1yvPdz/b1 --logfile b1/build.log infernal_1.1.5-2.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' I: uname -a Linux infom02-amd64 6.6.13+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.6.13-1~bpo12+1 (2024-02-15) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 10 17:51 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2353825/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: amd64 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), libperl4-corelibs-perl, 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 ... 19699 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 libperl4-corelibs-perl; however: Package libperl4-corelibs-perl 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} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libperl4-corelibs-perl{a} libpipeline1{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libreadline8t64{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-minimal{a} python3.11{a} python3.11-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, 44 newly installed, 0 to remove and 0 not upgraded. Need to get 24.9 MB of archives. After unpacking 98.1 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 libpython3.11-minimal amd64 3.11.9-1 [817 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.2-1 [103 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 python3.11-minimal amd64 3.11.9-1 [1879 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.11.8-1 [26.3 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 tzdata all 2024a-4 [255 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-4 [69.3 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-4 [167 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 libpython3.11-stdlib amd64 3.11.9-1 [1792 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 python3.11 amd64 3.11.9-1 [602 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 libpython3-stdlib amd64 3.11.8-1 [9332 B] Get: 13 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.11.8-1 [27.4 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.22 [22.4 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3 [42.9 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.21-14+b1 [161 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-4 [1180 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40-8 [92.8 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.12.1-1 [1411 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.71-3 [332 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.21-14 [496 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 libtool all 2.4.7-7 [517 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 36 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.191-1+b1 [189 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-4+b1 [9395 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.9.14+dfsg-1.3+b3 [692 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.21-14+b1 [1301 kB] Get: 41 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 42 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 43 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.15.3 [901 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 libperl4-corelibs-perl all 0.005-1 [39.0 kB] Fetched 24.9 MB in 0s (90.7 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:amd64. (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 ... 19699 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.9-1_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.9-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.6.2-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.2-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.9-1_amd64.deb ... Unpacking python3.11-minimal (3.11.9-1) ... Setting up libpython3.11-minimal:amd64 (3.11.9-1) ... Setting up libexpat1:amd64 (2.6.2-1) ... Setting up python3.11-minimal (3.11.9-1) ... 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 ... 20015 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.8-1_amd64.deb ... Unpacking python3-minimal (3.11.8-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2024a-4_all.deb ... Unpacking tzdata (2024a-4) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.2-4_all.deb ... Unpacking readline-common (8.2-4) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../5-libreadline8t64_8.2-4_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-4) ... Selecting previously unselected package libpython3.11-stdlib:amd64. Preparing to unpack .../6-libpython3.11-stdlib_3.11.9-1_amd64.deb ... Unpacking libpython3.11-stdlib:amd64 (3.11.9-1) ... Selecting previously unselected package python3.11. Preparing to unpack .../7-python3.11_3.11.9-1_amd64.deb ... Unpacking python3.11 (3.11.9-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../8-libpython3-stdlib_3.11.8-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.11.8-1) ... Setting up python3-minimal (3.11.8-1) ... 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 ... 21007 files and directories currently installed.) Preparing to unpack .../00-python3_3.11.8-1_amd64.deb ... Unpacking python3 (3.11.8-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.45-3_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../03-libmagic1t64_1%3a5.45-3_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.45-3_amd64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.21-14+b1_amd64.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../06-libuchardet0_0.0.8-1+b1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. 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Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. 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Setting up media-types (10.1.0) ... Setting up libpipeline1:amd64 (1.5.7-2) ... Setting up libicu72:amd64 (72.1-4+b1) ... Setting up bsdextrautils (2.40-8) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libperl4-corelibs-perl (0.005-1) ... Setting up libmagic1t64:amd64 (1:5.45-3) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3) ... Setting up libelf1t64:amd64 (0.191-1+b1) ... Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Jun 12 01:26:16 UTC 2025. Universal Time is now: Thu Jun 12 01:26:16 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-14) ... Setting up autoconf (2.71-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up libsub-override-perl (0.10-1) ... Setting up netbase (6.4) ... Setting up readline-common (8.2-4) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.3+b3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libreadline8t64:amd64 (8.2-4) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up groff-base (1.23.0-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:amd64 (3.11.9-1) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libpython3-stdlib:amd64 (3.11.8-1) ... Setting up python3.11 (3.11.9-1) ... Setting up debhelper (13.15.3) ... Setting up python3 (3.11.8-1) ... Processing triggers for libc-bin (2.38-7) ... 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 I: Building the package I: Running cd /build/reproducible-path/infernal-1.1.5/ && 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 > ../infernal_1.1.5-2_source.changes dpkg-buildpackage: info: source package infernal dpkg-buildpackage: info: source version 1.1.5-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/infernal-1.1.5' if [ -r Makefile ]; then /usr/bin/make distclean; fi cd documentation/userguide && if [ -r Makefile ]; then make distclean; fi cd easel/documentation && if [ -r Makefile ]; then make distclean; fi dh_clean *.1 */*.log *.log */Makefile Makefile documentation/manpages/*.1 rm -f testsuite/i49.tbl make[1]: Leaving directory '/build/reproducible-path/infernal-1.1.5' dh_clean debian/rules binary dh binary dh_update_autotools_config cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead dh_autoreconf debian/rules override_dh_auto_configure-arch make[1]: Entering directory '/build/reproducible-path/infernal-1.1.5' dh_auto_configure -a ./configure --build=x86_64-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/x86_64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking configure: Configuring Infernal for your system. checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu 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 grep that handles long lines and -e... /usr/bin/grep checking for egrep... /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... no checking whether gcc can compile our Altivec/VMX code... no checking whether gcc can compile our SSE code... yes configure: Activating Intel/AMD SSE vector DP implementation checking whether _MM_SET_FLUSH_ZERO_MODE is supported... yes 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 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 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 _LARGEFILE_SOURCE value needed for large files... no checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating testsuite/Makefile config.status: creating rmark/Makefile config.status: creating documentation/Makefile config.status: creating documentation/man/Makefile config.status: creating documentation/userguide/Makefile config.status: creating src/impl_sse/Makefile config.status: creating documentation/userguide/titlepage.tex config.status: creating documentation/userguide/copyright.tex config.status: creating documentation/man/cmalign.man config.status: creating documentation/man/cmbuild.man config.status: creating documentation/man/cmcalibrate.man config.status: creating documentation/man/cmconvert.man config.status: creating documentation/man/cmemit.man config.status: creating documentation/man/cmfetch.man config.status: creating documentation/man/cmpress.man config.status: creating documentation/man/cmscan.man config.status: creating documentation/man/cmsearch.man config.status: creating documentation/man/cmsearch_dual.man config.status: creating documentation/man/cmstat.man config.status: creating documentation/man/infernal.man config.status: creating documentation/man/sse_cmsearch.man config.status: creating hmmer/Makefile config.status: creating hmmer/src/Makefile config.status: creating hmmer/testsuite/Makefile config.status: creating hmmer/profmark/Makefile config.status: creating hmmer/src/impl_sse/Makefile config.status: creating hmmer/documentation/Makefile config.status: creating hmmer/documentation/man/Makefile config.status: creating hmmer/documentation/userguide/Makefile config.status: creating hmmer/documentation/userguide/inclusions/Makefile config.status: creating hmmer/libdivsufsort/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 hmmer/documentation/userguide/titlepage.tex config.status: creating hmmer/documentation/userguide/titlepage_daemon.tex config.status: creating hmmer/documentation/userguide/copyright.tex config.status: creating hmmer/documentation/man/alimask.man config.status: creating hmmer/documentation/man/hmmalign.man config.status: creating hmmer/documentation/man/hmmbuild.man config.status: creating hmmer/documentation/man/hmmc2.man config.status: creating hmmer/documentation/man/hmmconvert.man config.status: creating hmmer/documentation/man/hmmemit.man config.status: creating hmmer/documentation/man/hmmer.man config.status: creating hmmer/documentation/man/hmmfetch.man config.status: creating hmmer/documentation/man/hmmlogo.man config.status: creating hmmer/documentation/man/hmmpgmd.man config.status: creating hmmer/documentation/man/hmmpgmd_shard.man config.status: creating hmmer/documentation/man/hmmpress.man config.status: creating hmmer/documentation/man/hmmscan.man config.status: creating hmmer/documentation/man/hmmsearch.man config.status: creating hmmer/documentation/man/hmmsim.man config.status: creating hmmer/documentation/man/hmmstat.man config.status: creating hmmer/documentation/man/jackhmmer.man config.status: creating hmmer/documentation/man/makehmmerdb.man config.status: creating hmmer/documentation/man/nhmmer.man config.status: creating hmmer/documentation/man/nhmmscan.man config.status: creating hmmer/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/config.h config.status: creating hmmer/src/p7_config.h config.status: creating easel/esl_config.h config.status: creating hmmer/libdivsufsort/divsufsort.h INFERNAL configuration: compiler: gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread host: x86_64-pc-linux-gnu linker: -Wl,-z,relro -Wl,-z,now libraries: -lpthread DP implementation: sse Now do 'make' to build INFERNAL, and optionally: 'make check' to run self tests, 'make install' to install programs and man pages. '(cd hmmer; make install)' to install HMMER tools. '(cd easel; make install)' to install Easel tools. make[1]: Leaving directory '/build/reproducible-path/infernal-1.1.5' debian/rules override_dh_auto_build-arch make[1]: Entering directory '/build/reproducible-path/infernal-1.1.5' dh_auto_build -a -- V=1 make -j12 V=1 make[2]: Entering directory '/build/reproducible-path/infernal-1.1.5' make -C easel all make[3]: Entering directory '/build/reproducible-path/infernal-1.1.5/easel' gcc -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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[4]: Entering directory '/build/reproducible-path/infernal-1.1.5/easel/miniapps' gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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[4]: Leaving directory '/build/reproducible-path/infernal-1.1.5/easel/miniapps' make[3]: Leaving directory '/build/reproducible-path/infernal-1.1.5/easel' make -C hmmer/libdivsufsort all make[3]: Entering directory '/build/reproducible-path/infernal-1.1.5/hmmer/libdivsufsort' gcc -I. -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -o divsufsort.o -c divsufsort.c /usr/bin/ar rc libdivsufsort.a divsufsort.o make[3]: Leaving directory '/build/reproducible-path/infernal-1.1.5/hmmer/libdivsufsort' make -C hmmer all make[3]: Entering directory '/build/reproducible-path/infernal-1.1.5/hmmer' make -C ../easel all make[4]: Entering directory '/build/reproducible-path/infernal-1.1.5/easel' make -C miniapps all make[5]: Entering directory '/build/reproducible-path/infernal-1.1.5/easel/miniapps' make[5]: Nothing to be done for 'all'. make[5]: Leaving directory '/build/reproducible-path/infernal-1.1.5/easel/miniapps' make[4]: Leaving directory '/build/reproducible-path/infernal-1.1.5/easel' make -C libdivsufsort all make[4]: Entering directory '/build/reproducible-path/infernal-1.1.5/hmmer/libdivsufsort' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/build/reproducible-path/infernal-1.1.5/hmmer/libdivsufsort' make -C src all make[4]: Entering directory '/build/reproducible-path/infernal-1.1.5/hmmer/src' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o alimask.o -c alimask.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o build.o -c build.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o cachedb.o -c cachedb.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o cachedb_shard.o -c cachedb_shard.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o emit.o -c emit.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o errors.o -c errors.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o evalues.o -c evalues.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o eweight.o -c eweight.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o generic_decoding.o -c generic_decoding.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o generic_fwdback.o -c generic_fwdback.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o generic_fwdback_chk.o -c generic_fwdback_chk.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o generic_fwdback_banded.o -c generic_fwdback_banded.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o generic_null2.o -c generic_null2.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o generic_msv.o -c generic_msv.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o generic_optacc.o -c generic_optacc.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o generic_stotrace.o -c generic_stotrace.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o generic_viterbi.o -c generic_viterbi.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o generic_vtrace.o -c generic_vtrace.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o h2_io.o -c h2_io.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o heatmap.o -c heatmap.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmlogo.o -c hmmlogo.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmdmstr.o -c hmmdmstr.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmdmstr_shard.o -c hmmdmstr_shard.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmd_search_status.o -c hmmd_search_status.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmdwrkr.o -c hmmdwrkr.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmdwrkr_shard.o -c hmmdwrkr_shard.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmdutils.o -c hmmdutils.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmer.o -c hmmer.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o logsum.o -c logsum.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o modelconfig.o -c modelconfig.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o modelstats.o -c modelstats.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o mpisupport.o -c mpisupport.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o seqmodel.o -c seqmodel.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o tracealign.o -c tracealign.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_alidisplay.o -c p7_alidisplay.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_bg.o -c p7_bg.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_builder.o -c p7_builder.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_domain.o -c p7_domain.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_domaindef.o -c p7_domaindef.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_gbands.o -c p7_gbands.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_gmx.o -c p7_gmx.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_gmxb.o -c p7_gmxb.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_gmxchk.o -c p7_gmxchk.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_hit.o -c p7_hit.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_hmm.o -c p7_hmm.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_hmmcache.o -c p7_hmmcache.c In file included from /usr/include/string.h:548, from hmmdmstr_shard.c:10: In function 'memset', inlined from 'destroy_worker' at hmmdmstr_shard.c:989:5, inlined from 'update_workers.part.0' at hmmdmstr_shard.c:306:7: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: warning: argument 1 null where non-null expected [-Wnonnull] 59 | return __builtin___memset_chk (__dest, __ch, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: note: in a call to built-in function '__builtin_memset' In file included from /usr/include/string.h:548, from hmmdmstr.c:10: In function 'memset', inlined from 'destroy_worker' at hmmdmstr.c:950:5, inlined from 'update_workers.part.0' at hmmdmstr.c:285:7: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: warning: argument 1 null where non-null expected [-Wnonnull] 59 | return __builtin___memset_chk (__dest, __ch, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: note: in a call to built-in function '__builtin_memset' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_hmmfile.o -c p7_hmmfile.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_hmmwindow.o -c p7_hmmwindow.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_pipeline.o -c p7_pipeline.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_prior.o -c p7_prior.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_profile.o -c p7_profile.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_spensemble.o -c p7_spensemble.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_tophits.o -c p7_tophits.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_trace.o -c p7_trace.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o p7_scoredata.o -c p7_scoredata.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmpgmd2msa.o -c hmmpgmd2msa.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o fm_alphabet.o -c fm_alphabet.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o fm_general.o -c fm_general.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o fm_sse.o -c fm_sse.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o fm_ssv.o -c fm_ssv.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmalign.o -c hmmalign.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmbuild.o -c hmmbuild.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmconvert.o -c hmmconvert.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmemit.o -c hmmemit.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmfetch.o -c hmmfetch.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmpgmd.o -c hmmpgmd.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmpgmd_shard.o -c hmmpgmd_shard.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmpress.o -c hmmpress.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmscan.o -c hmmscan.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmsearch.o -c hmmsearch.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmsim.o -c hmmsim.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmstat.o -c hmmstat.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o jackhmmer.o -c jackhmmer.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o phmmer.o -c phmmer.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o nhmmer.o -c nhmmer.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o nhmmscan.o -c nhmmscan.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o makehmmerdb.o -c makehmmerdb.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -o hmmc2.o -c hmmc2.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../../easel -I. -I. -I../libdivsufsort -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_sse libhmmer-impl.stamp make[5]: Entering directory '/build/reproducible-path/infernal-1.1.5/hmmer/src/impl_sse' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -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[5]: Leaving directory '/build/reproducible-path/infernal-1.1.5/hmmer/src/impl_sse' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o alimask alimask.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmalign hmmalign.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmbuild hmmbuild.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmconvert hmmconvert.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmemit hmmemit.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmfetch hmmfetch.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmlogo hmmlogo.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmpgmd hmmpgmd.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmpress hmmpress.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmscan hmmscan.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmsearch hmmsearch.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmsim hmmsim.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmstat hmmstat.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o jackhmmer jackhmmer.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o phmmer phmmer.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o nhmmer nhmmer.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o nhmmscan nhmmscan.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o makehmmerdb makehmmerdb.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmc2 hmmc2.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -L../../easel -L./impl_sse -L../libdivsufsort -L. -o hmmerfm-exactmatch hmmerfm-exactmatch.o -lhmmer -leasel -ldivsufsort -lpthread -lm make[4]: Leaving directory '/build/reproducible-path/infernal-1.1.5/hmmer/src' make -C profmark all make[4]: Entering directory '/build/reproducible-path/infernal-1.1.5/hmmer/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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../../easel -L../src -o create-profmark create-profmark.o -lhmmer -leasel -lpthread -lm make[4]: Leaving directory '/build/reproducible-path/infernal-1.1.5/hmmer/profmark' make[3]: Leaving directory '/build/reproducible-path/infernal-1.1.5/hmmer' make -C src all make[3]: Entering directory '/build/reproducible-path/infernal-1.1.5/src' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cmalign.o -c cmalign.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm.o -c cm.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_alidisplay.o -c cm_alidisplay.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_alndata.o -c cm_alndata.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_dpalign.o -c cm_dpalign.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_dpalign_trunc.o -c cm_dpalign_trunc.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_dpsearch.o -c cm_dpsearch.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_dpsearch_trunc.o -c cm_dpsearch_trunc.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_dpsmall.o -c cm_dpsmall.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_file.o -c cm_file.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_modelconfig.o -c cm_modelconfig.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_modelmaker.o -c cm_modelmaker.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_mx.o -c cm_mx.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_parsetree.o -c cm_parsetree.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_pipeline.o -c cm_pipeline.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_qdband.o -c cm_qdband.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_submodel.o -c cm_submodel.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_tophits.o -c cm_tophits.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_trunc.o -c cm_trunc.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_p7_band.o -c cm_p7_band.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_p7_domaindef.o -c cm_p7_domaindef.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_p7_modelconfig_trunc.o -c cm_p7_modelconfig_trunc.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cm_p7_modelmaker.o -c cm_p7_modelmaker.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cp9.o -c cp9.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cp9_dp.o -c cp9_dp.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cp9_modelmaker.o -c cp9_modelmaker.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cp9_mx.o -c cp9_mx.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cp9_trace.o -c cp9_trace.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o alphabet.o -c alphabet.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o display.o -c display.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o errors.o -c errors.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o eweight.o -c eweight.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o hmmband.o -c hmmband.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o logsum.o -c logsum.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o mpisupport.o -c mpisupport.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o prior.o -c prior.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o rnamat.o -c rnamat.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o stats.o -c stats.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o truncyk.o -c truncyk.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cmbuild.o -c cmbuild.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cmcalibrate.o -c cmcalibrate.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cmconvert.o -c cmconvert.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cmemit.o -c cmemit.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cmfetch.o -c cmfetch.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cmpress.o -c cmpress.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cmscan.o -c cmscan.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cmsearch.o -c cmsearch.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cmstat.o -c cmstat.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o trcyk.o -c trcyk.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o bandcyk-montecarlo-test.o -c bandcyk-montecarlo-test.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o bandcyk-truncation-test.o -c bandcyk-truncation-test.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o cp9-test.o -c cp9-test.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o sub_cm-test.o -c sub_cm-test.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../hmmer/src -I../easel -I../hmmer/src -I. -I. -o truncyk_check.o -c truncyk_check.c /usr/bin/ar -r libinfernal.a cm.o cm_alidisplay.o cm_alndata.o cm_dpalign.o cm_dpalign_trunc.o cm_dpsearch.o cm_dpsearch_trunc.o cm_dpsmall.o cm_file.o cm_modelconfig.o cm_modelmaker.o cm_mx.o cm_parsetree.o cm_pipeline.o cm_qdband.o cm_submodel.o cm_tophits.o cm_trunc.o cm_p7_band.o cm_p7_domaindef.o cm_p7_modelconfig_trunc.o cm_p7_modelmaker.o cp9.o cp9_dp.o cp9_modelmaker.o cp9_mx.o cp9_trace.o alphabet.o display.o errors.o eweight.o hmmband.o logsum.o mpisupport.o prior.o rnamat.o stats.o truncyk.o > /dev/null 2>&1 make -C impl_sse libinfernal-impl.stamp make[4]: Entering directory '/build/reproducible-path/infernal-1.1.5/src/impl_sse' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I../../hmmer/src -I../../hmmer/src -I. -I.. -I. -I../../src -o cm_optimized.o -c cm_optimized.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I../../hmmer/src -I../../hmmer/src -I. -I.. -I. -I../../src -o sse_cm_dpsearch.o -c sse_cm_dpsearch.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I../../hmmer/src -I../../hmmer/src -I. -I.. -I. -I../../src -o sse_cm_dpsmall.o -c sse_cm_dpsmall.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I../../hmmer/src -I../../hmmer/src -I. -I.. -I. -I../../src -o sse_cmcons_hitmx.o -c sse_cmcons_hitmx.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I../../hmmer/src -I../../hmmer/src -I. -I.. -I. -I../../src -o sse_cmcons_mscyk.o -c sse_cmcons_mscyk.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I../../hmmer/src -I../../hmmer/src -I. -I.. -I. -I../../src -o sse_util.o -c sse_util.c /usr/bin/ar -r ../libinfernal.a cm_optimized.o sse_cm_dpsearch.o sse_cm_dpsmall.o sse_cmcons_hitmx.o sse_cmcons_mscyk.o sse_util.o > /dev/null 2>&1 make[4]: Leaving directory '/build/reproducible-path/infernal-1.1.5/src/impl_sse' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o cmalign cmalign.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o cmbuild cmbuild.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o cmcalibrate cmcalibrate.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o cmconvert cmconvert.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o cmemit cmemit.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o cmfetch cmfetch.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o cmpress cmpress.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o cmscan cmscan.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o cmsearch cmsearch.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o cmstat cmstat.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o trcyk trcyk.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o bandcyk-montecarlo-test bandcyk-montecarlo-test.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o bandcyk-truncation-test bandcyk-truncation-test.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o cp9-test cp9-test.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o sub_cm-test sub_cm-test.o -linfernal -lhmmer -leasel -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../easel -L../hmmer/src -L./impl_sse -L. -o truncyk_check truncyk_check.o -linfernal -lhmmer -leasel -lpthread -lm make[3]: Leaving directory '/build/reproducible-path/infernal-1.1.5/src' make -C rmark all make[3]: Entering directory '/build/reproducible-path/infernal-1.1.5/rmark' gcc -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I../src -I../src -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -o rmark-create.o -c rmark-create.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I../src -I../src -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -DHAVE_CONFIG_H -o rmark-rocplot.o -c rmark-rocplot.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../hmmer/src -L../easel -L../src -o rmark-rocplot rmark-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/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -pthread -DHAVE_CONFIG_H -Wl,-z,relro -Wl,-z,now -L../hmmer/src -L../easel -L../src -o rmark-create rmark-create.o -lhmmer -leasel -lpthread -lm make[3]: Leaving directory '/build/reproducible-path/infernal-1.1.5/rmark' make -C src/impl_sse all make[3]: Entering directory '/build/reproducible-path/infernal-1.1.5/src/impl_sse' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_CONFIG_H -I../../easel -I../../easel -I../../hmmer/src -I../../hmmer/src -I. -I.. -I. -I../../src -o sse_cmsearch.o -c sse_cmsearch.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/infernal-1.1.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_CONFIG_H -L../../easel -L../../hmmer/src -L.. -I../../easel -I../../easel -I../../hmmer/src -I../../hmmer/src -I. -I.. -I. -I../../src -o sse_cmsearch sse_cmsearch.o -linfernal -lhmmer -leasel -lm make[3]: Leaving directory '/build/reproducible-path/infernal-1.1.5/src/impl_sse' make[2]: Leaving directory '/build/reproducible-path/infernal-1.1.5' make[1]: Leaving directory '/build/reproducible-path/infernal-1.1.5' dh_auto_test make -j12 check "TESTSUITEFLAGS=-j12 --verbose" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/infernal-1.1.5' SUBDIR easel make[2]: Entering directory '/build/reproducible-path/infernal-1.1.5/easel' GEN esl_alloc_utest GEN easel_utest GEN esl_cpu_utest GEN esl_dmatrix_utest GEN esl_cluster_utest GEN esl_buffer_utest GEN esl_alphabet_utest GEN esl_bitfield_utest GEN esl_dirichlet_utest GEN esl_distance_utest GEN esl_exponential_utest GEN esl_dsqdata_utest GEN esl_fileparser_utest GEN esl_gamma_utest GEN esl_getopts_utest GEN esl_gencode_utest GEN esl_graph_utest GEN esl_gumbel_utest GEN esl_heap_utest GEN esl_histogram_utest GEN esl_hmm_utest GEN esl_huffman_utest GEN esl_iset_utest GEN esl_hyperexp_utest GEN esl_json_utest GEN esl_keyhash_utest GEN esl_lognormal_utest GEN esl_matrixops_utest GEN esl_mem_utest GEN esl_minimizer_utest GEN esl_mixdchlet_utest GEN esl_msa_utest GEN esl_msacluster_utest GEN esl_msafile_utest GEN esl_msafile2_utest GEN esl_msafile_a2m_utest GEN esl_msafile_afa_utest GEN esl_msafile_clustal_utest GEN esl_msafile_phylip_utest GEN esl_msafile_psiblast_utest GEN esl_msafile_selex_utest GEN esl_msafile_stockholm_utest GEN esl_msaweight_utest GEN esl_normal_utest GEN esl_quicksort_utest GEN esl_rand64_utest GEN esl_random_utest GEN esl_randomseq_utest GEN esl_ratematrix_utest GEN esl_red_black_utest GEN esl_recorder_utest GEN esl_regexp_utest GEN esl_rootfinder_utest GEN esl_scorematrix_utest GEN esl_sq_utest GEN esl_sqio_utest GEN esl_ssi_utest GEN esl_stack_utest GEN esl_stats_utest GEN esl_stretchexp_utest GEN esl_tree_utest GEN esl_varint_utest GEN esl_vectorops_utest GEN esl_weibull_utest GEN esl_wuss_utest GEN esl_avx_utest GEN esl_sse_utest GEN esl_avx512_utest GEN esl_neon_utest GEN esl_vmx_utest SUBDIR miniapps make[2]: Leaving directory '/build/reproducible-path/infernal-1.1.5/easel' SUBDIR hmmer/libdivsufsort make[2]: Entering directory '/build/reproducible-path/infernal-1.1.5/hmmer/libdivsufsort' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/infernal-1.1.5/hmmer/libdivsufsort' SUBDIR hmmer make[2]: Entering directory '/build/reproducible-path/infernal-1.1.5/hmmer' SUBDIR ../easel make[3]: Entering directory '/build/reproducible-path/infernal-1.1.5/easel' SUBDIR miniapps make[3]: Leaving directory '/build/reproducible-path/infernal-1.1.5/easel' SUBDIR src make[3]: Entering directory '/build/reproducible-path/infernal-1.1.5/hmmer/src' SUBDIR impl_sse CC itest_brute.o GEN generic_stotrace_utest GEN build_utest GEN generic_msv_utest GEN generic_fwdback_chk_utest GEN generic_fwdback_utest GEN generic_viterbi_utest GEN hmmer_utest GEN seqmodel_utest GEN logsum_utest GEN modelconfig_utest GEN p7_alidisplay_utest GEN p7_bg_utest GEN p7_domain_utest GEN p7_gmxchk_utest GEN p7_hit_utest GEN p7_gmx_utest GEN p7_hmmd_search_stats_utest GEN p7_hmm_utest GEN p7_hmmfile_utest GEN p7_profile_utest GEN p7_tophits_utest GEN p7_trace_utest GEN p7_scoredata_utest GEN hmmpgmd2msa_utest GEN hmmd_search_status_utest GEN itest_brute SUBDIR impl_sse make[4]: Entering directory '/build/reproducible-path/infernal-1.1.5/hmmer/src/impl_sse' GEN decoding_utest GEN io_utest GEN fwdback_utest GEN msvfilter_utest GEN stotrace_utest GEN null2_utest GEN optacc_utest GEN vitfilter_utest make[4]: Leaving directory '/build/reproducible-path/infernal-1.1.5/hmmer/src/impl_sse' make[3]: Leaving directory '/build/reproducible-path/infernal-1.1.5/hmmer/src' make[2]: Leaving directory '/build/reproducible-path/infernal-1.1.5/hmmer' SUBDIR src make[2]: Entering directory '/build/reproducible-path/infernal-1.1.5/src' SUBDIR impl_sse CC itest_brute.o make[3]: Entering directory '/build/reproducible-path/infernal-1.1.5/src/impl_sse' make[3]: 'libinfernal-impl.stamp' is up to date. make[3]: Leaving directory '/build/reproducible-path/infernal-1.1.5/src/impl_sse' GEN cm_tophits_utest GEN itest_brute SUBDIR impl_sse make[3]: Entering directory '/build/reproducible-path/infernal-1.1.5/src/impl_sse' make[3]: Nothing to be done for 'tests'. make[3]: Leaving directory '/build/reproducible-path/infernal-1.1.5/src/impl_sse' make[2]: Leaving directory '/build/reproducible-path/infernal-1.1.5/src' SUBDIR easel make[2]: Entering directory '/build/reproducible-path/infernal-1.1.5/easel' SUBDIR miniapps SUBDIR testsuite make[3]: Entering directory '/build/reproducible-path/infernal-1.1.5/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: Wed Jun 11 13:27:36 -12 2025 Linux infom02-amd64 6.6.13+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.6.13-1~bpo12+1 (2024-02-15) x86_64 GNU/Linux make[3]: Leaving directory '/build/reproducible-path/infernal-1.1.5/easel/testsuite' make[2]: Leaving directory '/build/reproducible-path/infernal-1.1.5/easel' SUBDIR hmmer/testsuite make[2]: Entering directory '/build/reproducible-path/infernal-1.1.5/hmmer/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: Wed Jun 11 13:27:54 -12 2025 Linux infom02-amd64 6.6.13+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.6.13-1~bpo12+1 (2024-02-15) x86_64 GNU/Linux make[2]: Leaving directory '/build/reproducible-path/infernal-1.1.5/hmmer/testsuite' SUBDIR testsuite make[2]: Entering directory '/build/reproducible-path/infernal-1.1.5/testsuite' Running Infernal test suite... exercise 1 [ utest/cm_tophits] ... ok. exercise 2 [ itest/mapali] ... ok. exercise 3 [ itest/dup-names] ... ok. exercise 4 [ itest/msa-integrity] ... ok. exercise 5 [ itest/stdin-pipes] ... ok. exercise 6 [ itest/pipeline] ... ok. exercise 7 [ itest/sensitivity] ... ok. exercise 8 [ itest/trunc] ... ok. exercise 9 [ itest/scan-glist] ... ok. exercise 10 [ itest/scan-overlaps] ... ok. exercise 11 [ itest/build-frags] ... ok. exercise 12 [ itest/search-frags] ... ok. exercise 13 [ itest/brute] ... ok. exercise 14 [ bug/i1-vault-sscons] ... ok. exercise 15 [ bug/i2-cmalign-leak] ... ok. exercise 16 [ bug/i11-bld-detach] ... ok. exercise 17 [ bug/i12-aln-outside] ... ok. exercise 18 [ bug/i13-aln-sub] ... ok. exercise 19 [ bug/i14-aln-oa-zero] ... ok. exercise 20 [ bug/i15-aln-bif-imp] ... ok. exercise 21 [ bug/i28-srch-bndcln] ... ok. exercise 22 [ bug/i29-cnv-1p0-nft] ... ok. exercise 23 [ bug/i30-srch-zeroln] ... ok. exercise 24 [ bug/i31-neg-dbsize] ... ok. exercise 25 [ bug/i32-refine-ss] ... ok. exercise 26 [ bug/i33-cmsearch-A] ... ok. exercise 27 [ bug/i34-cmalign-EL] ... ok. exercise 28 [ bug/i36-hbanded-tb] ... ok. exercise 29 [ bug/i37-bandshift] ... ok. exercise 30 [ bug/i38-mapali-noss] ... ok. exercise 31 [ bug/i39-build-O-0bp] ... ok. exercise 32 [ bug/i43-oa-loc-beg] ... ok. exercise 33 [ bug/i44-mapstr] ... ok. exercise 34 [bug/i45-alidisplay-EL] ... ok. exercise 35 [ bug/i47-cmbuild-p7ml] ... ok. exercise 36 [ bug/i49-hmmonly-ovlp] ... ok. exercise 37 [ iss21-cmbuild-rf-pb] ... ok. exercise 38 [ iss33-trunc-pipeline] ... ok. exercise 39 [iss34-bld-frg-slf-ins] ... ok. exercise 40 [ build/help/1] ... ok. exercise 41 [ build/help/2] ... ok. exercise 42 [ build/t] ... ok. exercise 43 [ build/v/o] ... ok. exercise 44 [ build/s/O] ... ok. exercise 45 [ build/zbp/O] ... ok. exercise 46 [ build/4/O] ... ok. exercise 47 [ search/help/1] ... ok. exercise 48 [ search/help/2] ... ok. exercise 49 [ search/t] ... ok. exercise 50 [ search/v] ... ok. exercise 51 [ search/s] ... ok. exercise 52 [ search/4] ... ok. exercise 53 [ search/4F3] ... ok. exercise 54 [ search/4f] ... ok. exercise 55 [ search/zbp] ... ok. exercise 56 [ search/t/A] ... ok. exercise 57 [ search/4/A] ... ok. exercise 58 [ search/zbp/A] ... ok. exercise 59 [ stat/help/1] ... ok. exercise 60 [ stat/t] ... ok. exercise 61 [ stat/v] ... ok. exercise 62 [ stat/s] ... ok. exercise 63 [ stat/z] ... ok. exercise 64 [ stat/tC] ... ok. exercise 65 [ stat/vC] ... ok. exercise 66 [ stat/sC] ... ok. exercise 67 [ stat/zC] ... ok. exercise 68 [ press/tC] ... ok. exercise 69 [ press/vC] ... ok. exercise 70 [ press/sC] ... ok. exercise 71 [ press/zC] ... ok. exercise 72 [ press/4C] ... ok. exercise 73 [ press/5C] ... ok. exercise 74 [ press/se] ... ok. exercise 75 [ scan/help/1] ... ok. exercise 76 [ scan/help/2] ... ok. exercise 77 [ scan/tC] ... ok. exercise 78 [ scan/vC] ... ok. exercise 79 [ scan/sC] ... ok. exercise 80 [ scan/zC] ... ok. exercise 81 [ scan/4C] ... ok. exercise 82 [ scan/5C] ... ok. exercise 83 [ scan/5C3] ... ok. exercise 84 [ scan/5CF3] ... ok. exercise 85 [ scan/se] ... ok. exercise 86 [ scan/seF3] ... ok. exercise 87 [ emit/help/1] ... ok. exercise 88 [ emit/t] ... ok. exercise 89 [ emit/v] ... ok. exercise 90 [ emit/s] ... ok. exercise 91 [ emit/4] ... ok. exercise 92 [ emit/z] ... ok. exercise 93 [ emit/tC] ... ok. exercise 94 [ emit/vC] ... ok. exercise 95 [ emit/sC] ... ok. exercise 96 [ emit/4C] ... ok. exercise 97 [ emit/zC] ... ok. exercise 98 [ convert/help/1] ... ok. exercise 99 [ convert/t] ... ok. exercise 100 [ convert/v] ... ok. exercise 101 [ convert/s] ... ok. exercise 102 [ convert/4] ... ok. exercise 103 [ convert-emit/t] ... ok. exercise 104 [ convert-emit/v] ... ok. exercise 105 [ convert-emit/s] ... ok. exercise 106 [ convert-emit/4] ... ok. exercise 107 [ convert/t/b] ... ok. exercise 108 [ convert/v/b] ... ok. exercise 109 [ convert/s/b] ... ok. exercise 110 [ convert/4/b] ... ok. exercise 111 [ convert-emit/t/b] ... ok. exercise 112 [ convert-emit/v/b] ... ok. exercise 113 [ convert-emit/s/b] ... ok. exercise 114 [ convert-emit/4/b] ... ok. exercise 115 [ convert/t/1] ... ok. exercise 116 [ convert/v/1] ... ok. exercise 117 [ convert/s/1] ... ok. exercise 118 [ convert/4/1] ... ok. exercise 119 [ convert/t/1back] ... ok. exercise 120 [ convert/v/1back] ... ok. exercise 121 [ convert/s/1back] ... ok. exercise 122 [ convert/4/1back] ... ok. exercise 123 [ convert-emit/t/b] ... ok. exercise 124 [ convert-emit/v/b] ... ok. exercise 125 [ convert-emit/s/b] ... ok. exercise 126 [ convert-emit/4/b] ... ok. exercise 127 [ convertC/t] ... ok. exercise 128 [ convertC/v] ... ok. exercise 129 [ convertC/s] ... ok. exercise 130 [ convertC/4] ... ok. exercise 131 [ convertC-emit/t] ... ok. exercise 132 [ convertC-emit/v] ... ok. exercise 133 [ convertC-emit/s] ... ok. exercise 134 [ convertC-emit/4] ... ok. exercise 135 [ align/help/1] ... ok. exercise 136 [ align/t/1] ... ok. exercise 137 [ align/t/2] ... ok. exercise 138 [ calibrate/help/1] ... ok. exercise 139 [ calibrate/tFC] ... ok. exercise 140 [ calibrate/se] ... ok. exercise 141 [ calib/split/se] ... ok. exercise 142 [ calib/part1/se] ... ok. exercise 143 [ calib/part2/se] ... ok. exercise 144 [ calib/part3/se] ... ok. exercise 145 [ calib/part4/se] ... ok. exercise 146 [ calib/part5/se] ... ok. exercise 147 [ calib/part6/se] ... ok. exercise 148 [ calib/part7/se] ... ok. exercise 149 [ calib/part8/se] ... ok. exercise 150 [ calib/part9/se] ... ok. exercise 151 [ calib/part10/se] ... ok. exercise 152 [ calib/merge/se] ... ok. exercise 153 [ fetch/4/index] ... ok. exercise 154 [ fetch/4/f] ... ok. exercise 155 [ fetch/4/o] ... ok. exercise 156 [ fetch/4/O] ... ok. exercise 157 [ emit/4/O] ... ok. exercise 158 [ fetch/4C/index] ... ok. exercise 159 [ fetch/4C/f] ... ok. exercise 160 [ fetch/4C/o] ... ok. exercise 161 [ fetch/4C/O] ... ok. exercise 162 [ emit/4C/O] ... ok. exercise 163 [ bandcykmc/trna] ... ok. exercise 164 [ bandcyktrunc/trna] ... ok. exercise 165 [ cp9/trna/1] ... ok. exercise 166 [ cp9/trna/2] ... ok. exercise 167 [ cp9/rp] ... ok. exercise 168 [ sub/trna1] ... ok. exercise 169 [ sub/rp] ... ok. exercise 170 [ sub/trna2] ... ok. All 170 exercises at level <= 1 passed. System information: Wed Jun 11 13:33:20 -12 2025 Linux infom02-amd64 6.6.13+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.6.13-1~bpo12+1 (2024-02-15) x86_64 GNU/Linux make[2]: Leaving directory '/build/reproducible-path/infernal-1.1.5/testsuite' make[1]: Leaving directory '/build/reproducible-path/infernal-1.1.5' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install-arch make[1]: Entering directory '/build/reproducible-path/infernal-1.1.5' /usr/bin/make install -j12 AM_UPDATE_INFO_DIR=no V=1 prefix=/build/reproducible-path/infernal-1.1.5/debian/tmp make[2]: Entering directory '/build/reproducible-path/infernal-1.1.5' /usr/bin/install -c -d /build/reproducible-path/infernal-1.1.5/debian/tmp/bin /usr/bin/install -c -d /build/reproducible-path/infernal-1.1.5/debian/tmp/share/man/man1 /usr/bin/install -c -d /build/reproducible-path/infernal-1.1.5/debian/tmp/share/doc/infernal /usr/bin/make -C src install make[3]: Entering directory '/build/reproducible-path/infernal-1.1.5/src' for file in cmalign cmbuild cmcalibrate cmconvert cmemit cmfetch cmpress cmscan cmsearch cmstat; do \ /usr/bin/install -c -m 0755 $file /build/reproducible-path/infernal-1.1.5/debian/tmp/bin/ ;\ done make[3]: Leaving directory '/build/reproducible-path/infernal-1.1.5/src' /usr/bin/make -C documentation install make[3]: Entering directory '/build/reproducible-path/infernal-1.1.5/documentation' /usr/bin/make -C man install make[4]: Entering directory '/build/reproducible-path/infernal-1.1.5/documentation/man' for file in infernal cmalign cmbuild cmcalibrate cmconvert cmemit cmfetch cmpress cmsearch cmscan cmstat; do \ /usr/bin/install -c -m 0664 $file.man /build/reproducible-path/infernal-1.1.5/debian/tmp/share/man/man1/${file}.1 ;\ done make[4]: Leaving directory '/build/reproducible-path/infernal-1.1.5/documentation/man' make[3]: Leaving directory '/build/reproducible-path/infernal-1.1.5/documentation' make[2]: Leaving directory '/build/reproducible-path/infernal-1.1.5' make[1]: Leaving directory '/build/reproducible-path/infernal-1.1.5' debian/rules override_dh_auto_install-indep make[1]: Entering directory '/build/reproducible-path/infernal-1.1.5' echo "Nothing to do for architecture all binary packages" Nothing to do for architecture all binary packages make[1]: Leaving directory '/build/reproducible-path/infernal-1.1.5' debian/rules override_dh_install-arch make[1]: Entering directory '/build/reproducible-path/infernal-1.1.5' dh_install -a for bin in `ls /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/lib/infernal` ; do \ if [ $bin != cmalign ] ; then \ ln -s cmalign /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/bin/$bin ; \ fi ; \ done make[1]: Leaving directory '/build/reproducible-path/infernal-1.1.5' dh_install -Ninfernal dh_installdocs dh_installchangelogs debian/rules override_dh_installexamples-arch make[1]: Entering directory '/build/reproducible-path/infernal-1.1.5' dh_installexamples -a mkdir -p /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/share/doc/infernal/examples mkdir -p /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/lib/x86_64-linux-gnu/infernal/examples/src/ mkdir -p /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/lib/x86_64-linux-gnu/infernal/examples/easel/miniapps/ find ./src -name "*test" -exec cp \{\} /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/lib/x86_64-linux-gnu/infernal/examples/src/ \; cp ./src/itest_brute /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/lib/x86_64-linux-gnu/infernal/examples/src/ cp ./easel/miniapps/esl-reformat /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/lib/x86_64-linux-gnu/infernal/examples/easel/miniapps/ cp ./easel/miniapps/esl-shuffle /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/lib/x86_64-linux-gnu/infernal/examples/easel/miniapps/ cp ./easel/miniapps/esl-sfetch /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/lib/x86_64-linux-gnu/infernal/examples/easel/miniapps/ cd /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/share/doc/infernal/examples && ln -s ../../../../lib/x86_64-linux-gnu/infernal/examples/easel ./easel \ && ln -s ../../../../lib/x86_64-linux-gnu/infernal/examples/src ./src cp -aR testsuite /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/share/doc/infernal/examples/ rm -f /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/share/doc/infernal/examples/testsuite/*.tbl cp ./easel/devkit/sqc /build/reproducible-path/infernal-1.1.5/debian/infernal/usr/share/doc/infernal/examples/ make[1]: Leaving directory '/build/reproducible-path/infernal-1.1.5' dh_installman dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/reproducible-path/infernal-1.1.5' dh_compress -X.pdf make[1]: Leaving directory '/build/reproducible-path/infernal-1.1.5' dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package infernal-doc: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums dh_builddeb dpkg-deb: building package 'infernal' in '../infernal_1.1.5-2_amd64.deb'. dpkg-deb: building package 'infernal-dbgsym' in '../infernal-dbgsym_1.1.5-2_amd64.deb'. dpkg-deb: building package 'infernal-doc' in '../infernal-doc_1.1.5-2_all.deb'. dpkg-genbuildinfo --build=binary -O../infernal_1.1.5-2_amd64.buildinfo dpkg-genchanges --build=binary -O../infernal_1.1.5-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . 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/2353825 and its subdirectories I: Current time: Wed Jun 11 13:34:01 -12 2025 I: pbuilder-time-stamp: 1749692041 Thu May 9 19:11:04 UTC 2024 I: 1st build successful. Starting 2nd build on remote node infom01-amd64.debian.net. Thu May 9 19:11:04 UTC 2024 I: Preparing to do remote build '2' on infom01-amd64.debian.net. Thu May 9 19:19:27 UTC 2024 I: Deleting $TMPDIR on infom01-amd64.debian.net. Thu May 9 19:19:27 UTC 2024 I: infernal_1.1.5-2_amd64.changes: Format: 1.8 Date: Sat, 16 Sep 2023 15:58:22 +0200 Source: infernal Binary: infernal infernal-dbgsym infernal-doc Architecture: amd64 all Version: 1.1.5-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: infernal - inference of RNA secondary structural alignments infernal-doc - inference of RNA secondary structural alignments – documentation Changes: infernal (1.1.5-2) unstable; urgency=medium . * Team upload. * d/bin/cmalign: adjust SSE2 check to only run on i386 systems, allowing the /usr/lib/infernal/cm* apps to run on arm64 systems. Checksums-Sha1: 31f1a4d75a5dc4b1aa06ff7ed25f99a9d3be41f1 38019556 infernal-dbgsym_1.1.5-2_amd64.deb fd28d8d7d6a4f98e47caa79886272f18996f9ed2 913860 infernal-doc_1.1.5-2_all.deb f1ff13b1a05a02d63b47b08bf3cbc9d3d9ac983b 5896 infernal_1.1.5-2_amd64.buildinfo bb5564e3cce86b204e98831cac28ef0e58818357 5912348 infernal_1.1.5-2_amd64.deb Checksums-Sha256: e7f1c2292ea0f3c1a7c58eebd5d3c62e631be3dec45c3e718e9bed260fbb1095 38019556 infernal-dbgsym_1.1.5-2_amd64.deb c5150d038e61d00a2028a9be54ddbce8e0f0c500aed429f680eb975794139cc6 913860 infernal-doc_1.1.5-2_all.deb 3986f99fd9a3e63044f9e5ee683b75921c5044a38c4ccea43da991b7af0fc9fc 5896 infernal_1.1.5-2_amd64.buildinfo f18ca7966ed0753e049b5bce2d43d4416e139b1f551ddb112da948e4e31d400f 5912348 infernal_1.1.5-2_amd64.deb Files: f7c63a6410c90f4b1dbf55e8b84753f1 38019556 debug optional infernal-dbgsym_1.1.5-2_amd64.deb 3054dd43185673d8016d532669cdfba6 913860 doc optional infernal-doc_1.1.5-2_all.deb f0b7c8ae607ef1444f193a94bcd7a2e0 5896 science optional infernal_1.1.5-2_amd64.buildinfo e82cc3c58165dce35325b75a9b0b03d5 5912348 science optional infernal_1.1.5-2_amd64.deb Thu May 9 19:19:28 UTC 2024 I: diffoscope 265 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_38-9070.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.bv1yvPdz/infernal_1.1.5-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.bv1yvPdz/infernal_1.1.5-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.bv1yvPdz/infernal_1.1.5-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.bv1yvPdz/b1/infernal_1.1.5-2_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.bv1yvPdz/b2/infernal_1.1.5-2_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.834s) 0.834s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.480s) 0.480s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 1.192s CPU time consumed: 1.192s Thu May 9 19:19:30 UTC 2024 I: diffoscope 265 found no differences in the changes files, and a .buildinfo file also exists. Thu May 9 19:19:30 UTC 2024 I: infernal from trixie built successfully and reproducibly on amd64. Thu May 9 19:19:31 UTC 2024 I: Submitting .buildinfo files to external archives: Thu May 9 19:19:31 UTC 2024 I: Submitting 8.0K b1/infernal_1.1.5-2_amd64.buildinfo.asc Thu May 9 19:19:32 UTC 2024 I: Submitting 8.0K b2/infernal_1.1.5-2_amd64.buildinfo.asc Thu May 9 19:19:34 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu May 9 19:19:34 UTC 2024 I: Done submitting .buildinfo files. Thu May 9 19:19:34 UTC 2024 I: Removing signed infernal_1.1.5-2_amd64.buildinfo.asc files: removed './b1/infernal_1.1.5-2_amd64.buildinfo.asc' removed './b2/infernal_1.1.5-2_amd64.buildinfo.asc'