Diff of the two buildlogs: -- --- b1/build.log 2023-04-18 09:50:01.183748548 +0000 +++ b2/build.log 2023-04-18 10:22:35.501063002 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon Apr 17 21:38:32 -12 2023 -I: pbuilder-time-stamp: 1681810712 +I: Current time: Tue May 21 06:13:05 +14 2024 +I: pbuilder-time-stamp: 1716221585 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration @@ -16,7 +16,7 @@ I: copying [./infernal_1.1.4.orig.tar.gz] I: copying [./infernal_1.1.4-1.debian.tar.xz] I: Extracting source -gpgv: Signature made Fri Dec 11 06:06:23 2020 -12 +gpgv: Signature made Sat Dec 12 08:06:23 2020 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -29,135 +29,167 @@ 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/447473/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/151838/tmp/hooks/D01_modify_environment starting +debug: Running on ionos15-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 May 21 06:13 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/151838/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/151838/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build' - 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=15' - DISTRIBUTION='bookworm' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="15" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.15(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16' + DIRSTACK=() + DISTRIBUTION=bookworm + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='1f1c8aa476fe42b29d26206b6ddbb02c' - 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='447473' - PS1='# ' - PS2='> ' + INVOCATION_ID=a5c36a10efa94f73a16351dab819435d + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=151838 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.7tujdD4K/pbuilderrc_TMHE --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.7tujdD4K/b1 --logfile b1/build.log infernal_1.1.4-1.dsc' - SUDO_GID='110' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://78.137.99.97:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.7tujdD4K/pbuilderrc_nPnW --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.7tujdD4K/b2 --logfile b2/build.log --extrapackages usrmerge infernal_1.1.4-1.dsc' + SUDO_GID=111 + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://85.184.249.68:3128 I: uname -a - Linux ionos1-amd64 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-0.deb11.5-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.12-1~bpo11+1 (2023-03-05) x86_64 GNU/Linux I: ls -l /bin total 5632 - -rwxr-xr-x 1 root root 1265648 Feb 12 08:05 bash - -rwxr-xr-x 3 root root 39224 Sep 18 2022 bunzip2 - -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzcat - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep - -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzip2 - -rwxr-xr-x 1 root root 14568 Sep 18 2022 bzip2recover - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore - -rwxr-xr-x 1 root root 44016 Sep 20 2022 cat - -rwxr-xr-x 1 root root 68656 Sep 20 2022 chgrp - -rwxr-xr-x 1 root root 64496 Sep 20 2022 chmod - -rwxr-xr-x 1 root root 72752 Sep 20 2022 chown - -rwxr-xr-x 1 root root 151152 Sep 20 2022 cp - -rwxr-xr-x 1 root root 125640 Jan 5 01:20 dash - -rwxr-xr-x 1 root root 121904 Sep 20 2022 date - -rwxr-xr-x 1 root root 89240 Sep 20 2022 dd - -rwxr-xr-x 1 root root 102200 Sep 20 2022 df - -rwxr-xr-x 1 root root 151344 Sep 20 2022 dir - -rwxr-xr-x 1 root root 88656 Mar 22 22:02 dmesg - lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname - -rwxr-xr-x 1 root root 43856 Sep 20 2022 echo - -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep - -rwxr-xr-x 1 root root 35664 Sep 20 2022 false - -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep - -rwxr-xr-x 1 root root 85600 Mar 22 22:02 findmnt - -rwsr-xr-x 1 root root 35128 Mar 22 20:35 fusermount - -rwxr-xr-x 1 root root 203152 Jan 24 02:43 grep - -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip - -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe - -rwxr-xr-x 1 root root 98136 Apr 9 2022 gzip - -rwxr-xr-x 1 root root 22680 Dec 19 01:33 hostname - -rwxr-xr-x 1 root root 72824 Sep 20 2022 ln - -rwxr-xr-x 1 root root 53024 Mar 23 00:40 login - -rwxr-xr-x 1 root root 151344 Sep 20 2022 ls - -rwxr-xr-x 1 root root 207168 Mar 22 22:02 lsblk - -rwxr-xr-x 1 root root 97552 Sep 20 2022 mkdir - -rwxr-xr-x 1 root root 72912 Sep 20 2022 mknod - -rwxr-xr-x 1 root root 43952 Sep 20 2022 mktemp - -rwxr-xr-x 1 root root 59712 Mar 22 22:02 more - -rwsr-xr-x 1 root root 59704 Mar 22 22:02 mount - -rwxr-xr-x 1 root root 18744 Mar 22 22:02 mountpoint - -rwxr-xr-x 1 root root 142968 Sep 20 2022 mv - lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 43952 Sep 20 2022 pwd - lrwxrwxrwx 1 root root 4 Feb 12 08:05 rbash -> bash - -rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink - -rwxr-xr-x 1 root root 72752 Sep 20 2022 rm - -rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir - -rwxr-xr-x 1 root root 27560 Nov 2 04:31 run-parts - -rwxr-xr-x 1 root root 126424 Jan 5 07:55 sed - lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash - -rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep - -rwxr-xr-x 1 root root 85008 Sep 20 2022 stty - -rwsr-xr-x 1 root root 72000 Mar 22 22:02 su - -rwxr-xr-x 1 root root 39824 Sep 20 2022 sync - -rwxr-xr-x 1 root root 531984 Apr 6 02:25 tar - -rwxr-xr-x 1 root root 14520 Nov 2 04:31 tempfile - -rwxr-xr-x 1 root root 109616 Sep 20 2022 touch - -rwxr-xr-x 1 root root 35664 Sep 20 2022 true - -rwxr-xr-x 1 root root 14568 Mar 22 20:35 ulockmgr_server - -rwsr-xr-x 1 root root 35128 Mar 22 22:02 umount - -rwxr-xr-x 1 root root 43888 Sep 20 2022 uname - -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress - -rwxr-xr-x 1 root root 151344 Sep 20 2022 vdir - -rwxr-xr-x 1 root root 72024 Mar 22 22:02 wdctl - lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat - -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp - -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff - -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep - -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep - -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce - -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep - -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless - -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore - -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew -I: user script /srv/workspace/pbuilder/447473/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1265648 Feb 13 2023 bash + -rwxr-xr-x 3 root root 39224 Sep 19 2022 bunzip2 + -rwxr-xr-x 3 root root 39224 Sep 19 2022 bzcat + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4893 Nov 28 2021 bzexe + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep + -rwxr-xr-x 3 root root 39224 Sep 19 2022 bzip2 + -rwxr-xr-x 1 root root 14568 Sep 19 2022 bzip2recover + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore + -rwxr-xr-x 1 root root 44016 Sep 21 2022 cat + -rwxr-xr-x 1 root root 68656 Sep 21 2022 chgrp + -rwxr-xr-x 1 root root 64496 Sep 21 2022 chmod + -rwxr-xr-x 1 root root 72752 Sep 21 2022 chown + -rwxr-xr-x 1 root root 151152 Sep 21 2022 cp + -rwxr-xr-x 1 root root 125640 Jan 6 2023 dash + -rwxr-xr-x 1 root root 121904 Sep 21 2022 date + -rwxr-xr-x 1 root root 89240 Sep 21 2022 dd + -rwxr-xr-x 1 root root 102200 Sep 21 2022 df + -rwxr-xr-x 1 root root 151344 Sep 21 2022 dir + -rwxr-xr-x 1 root root 88656 Mar 24 2023 dmesg + lrwxrwxrwx 1 root root 8 Dec 20 2022 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Dec 20 2022 domainname -> hostname + -rwxr-xr-x 1 root root 43856 Sep 21 2022 echo + -rwxr-xr-x 1 root root 41 Jan 25 2023 egrep + -rwxr-xr-x 1 root root 35664 Sep 21 2022 false + -rwxr-xr-x 1 root root 41 Jan 25 2023 fgrep + -rwxr-xr-x 1 root root 85600 Mar 24 2023 findmnt + -rwsr-xr-x 1 root root 35128 Mar 23 2023 fusermount + -rwxr-xr-x 1 root root 203152 Jan 25 2023 grep + -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip + -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe + -rwxr-xr-x 1 root root 98136 Apr 10 2022 gzip + -rwxr-xr-x 1 root root 22680 Dec 20 2022 hostname + -rwxr-xr-x 1 root root 72824 Sep 21 2022 ln + -rwxr-xr-x 1 root root 53024 Mar 24 2023 login + -rwxr-xr-x 1 root root 151344 Sep 21 2022 ls + -rwxr-xr-x 1 root root 207168 Mar 24 2023 lsblk + -rwxr-xr-x 1 root root 97552 Sep 21 2022 mkdir + -rwxr-xr-x 1 root root 72912 Sep 21 2022 mknod + -rwxr-xr-x 1 root root 43952 Sep 21 2022 mktemp + -rwxr-xr-x 1 root root 59712 Mar 24 2023 more + -rwsr-xr-x 1 root root 59704 Mar 24 2023 mount + -rwxr-xr-x 1 root root 18744 Mar 24 2023 mountpoint + -rwxr-xr-x 1 root root 142968 Sep 21 2022 mv + lrwxrwxrwx 1 root root 8 Dec 20 2022 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 3 2023 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 43952 Sep 21 2022 pwd + lrwxrwxrwx 1 root root 4 Feb 13 2023 rbash -> bash + -rwxr-xr-x 1 root root 52112 Sep 21 2022 readlink + -rwxr-xr-x 1 root root 72752 Sep 21 2022 rm + -rwxr-xr-x 1 root root 56240 Sep 21 2022 rmdir + -rwxr-xr-x 1 root root 27560 Nov 3 2022 run-parts + -rwxr-xr-x 1 root root 126424 Jan 6 2023 sed + lrwxrwxrwx 1 root root 9 May 21 06:13 sh -> /bin/bash + -rwxr-xr-x 1 root root 43888 Sep 21 2022 sleep + -rwxr-xr-x 1 root root 85008 Sep 21 2022 stty + -rwsr-xr-x 1 root root 72000 Mar 24 2023 su + -rwxr-xr-x 1 root root 39824 Sep 21 2022 sync + -rwxr-xr-x 1 root root 531984 Apr 7 2023 tar + -rwxr-xr-x 1 root root 14520 Nov 3 2022 tempfile + -rwxr-xr-x 1 root root 109616 Sep 21 2022 touch + -rwxr-xr-x 1 root root 35664 Sep 21 2022 true + -rwxr-xr-x 1 root root 14568 Mar 23 2023 ulockmgr_server + -rwsr-xr-x 1 root root 35128 Mar 24 2023 umount + -rwxr-xr-x 1 root root 43888 Sep 21 2022 uname + -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress + -rwxr-xr-x 1 root root 151344 Sep 21 2022 vdir + -rwxr-xr-x 1 root root 72024 Mar 24 2023 wdctl + lrwxrwxrwx 1 root root 8 Dec 20 2022 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat + -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp + -rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff + -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep + -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep + -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce + -rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep + -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless + -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore + -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew +I: user script /srv/workspace/pbuilder/151838/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -239,7 +271,7 @@ Get: 40 http://deb.debian.org/debian bookworm/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 41 http://deb.debian.org/debian bookworm/main amd64 debhelper all 13.11.4 [942 kB] Get: 42 http://deb.debian.org/debian bookworm/main amd64 libperl4-corelibs-perl all 0.004-3 [38.5 kB] -Fetched 24.4 MB in 0s (85.6 MB/s) +Fetched 24.4 MB in 1s (24.3 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 ... 19596 files and directories currently installed.) @@ -423,8 +455,19 @@ Writing extended state information... Building tag database... -> Finished parsing the build-deps +Reading package lists... +Building dependency tree... +Reading state information... +usrmerge is already the newest version (35). +0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/infernal-1.1.4/ && 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_1.1.4-1_source.changes +I: user script /srv/workspace/pbuilder/151838/tmp/hooks/A99_set_merged_usr starting +Re-configuring usrmerge... +removed '/etc/unsupported-skip-usrmerge-conversion' +The system has been successfully converted. +I: user script /srv/workspace/pbuilder/151838/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/infernal-1.1.4/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../infernal_1.1.4-1_source.changes dpkg-buildpackage: info: source package infernal dpkg-buildpackage: info: source version 1.1.4-1 dpkg-buildpackage: info: source distribution unstable @@ -479,9 +522,9 @@ 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... /bin/sed -checking for grep that handles long lines and -e... /bin/grep -checking for egrep... /bin/grep -E +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... yes checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE @@ -492,7 +535,7 @@ 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... /bin/gzip +checking for gzip... /usr/bin/gzip checking for python3... /usr/bin/python3 checking for library containing clock_gettime... none required checking for stdio.h... yes @@ -650,7 +693,7 @@ debian/rules override_dh_auto_build-arch make[1]: Entering directory '/build/infernal-1.1.4' dh_auto_build -a -- V=1 - make -j15 V=1 + make -j16 V=1 make[2]: Entering directory '/build/infernal-1.1.4' make -C easel all make[3]: Entering directory '/build/infernal-1.1.4/easel' @@ -836,6 +879,15 @@ gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_hmm.o -c p7_hmm.c gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_hmmcache.o -c p7_hmmcache.c gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_hmmd_search_stats.o -c p7_hmmd_search_stats.c +gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_hmmfile.o -c p7_hmmfile.c +gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_hmmwindow.o -c p7_hmmwindow.c +gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_pipeline.o -c p7_pipeline.c +gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_prior.o -c p7_prior.c +gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_profile.o -c p7_profile.c +gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_spensemble.o -c p7_spensemble.c +gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_tophits.o -c p7_tophits.c +gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_trace.o -c p7_trace.c +gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_scoredata.o -c p7_scoredata.c In file included from /usr/include/string.h:535, from hmmdmstr.c:10: In function 'memset', @@ -847,7 +899,6 @@ 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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_hmmfile.o -c p7_hmmfile.c In file included from /usr/include/string.h:535, from hmmdmstr_shard.c:10: In function 'memset', @@ -859,14 +910,6 @@ 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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_hmmwindow.o -c p7_hmmwindow.c -gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_pipeline.o -c p7_pipeline.c -gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_prior.o -c p7_prior.c -gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_profile.o -c p7_profile.c -gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_spensemble.o -c p7_spensemble.c -gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_tophits.o -c p7_tophits.c -gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_trace.o -c p7_trace.c -gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o p7_scoredata.o -c p7_scoredata.c gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o hmmpgmd2msa.o -c hmmpgmd2msa.c gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o fm_alphabet.o -c fm_alphabet.c gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -pthread -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../../easel -I../libdivsufsort -I../../easel -I. -I. -o fm_general.o -c fm_general.c @@ -957,6 +1000,7 @@ gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 cm_alidisplay.c: In function 'cm_alidisplay_Create': cm_alidisplay.c:371:35: warning: '%*d' directive output between 1 and 2147483647 bytes may cause result to exceed 'INT_MAX' [-Wformat-overflow=] 371 | sprintf(ad->model+pos, "*[%*d]*", numwidth, qinset); @@ -970,7 +1014,6 @@ cm_alidisplay.c:372:31: note: directive argument in the range [-2147483647, 2147483647] 372 | sprintf(ad->aseq+pos, "*[%*d]*", numwidth, tinset); | ^~~~~~~~~ -gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 @@ -986,12 +1029,6 @@ gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 display.c: In function 'CreateFancyAli': display.c:405:35: warning: '%*d' directive output between 1 and 2147483647 bytes may cause result to exceed 'INT_MAX' [-Wformat-overflow=] 405 | sprintf(ali->cseq+pos, "*[%*d]*", numwidth, qinset); @@ -999,7 +1036,6 @@ display.c:405:32: note: directive argument in the range [-2147483647, 2147483647] 405 | sprintf(ali->cseq+pos, "*[%*d]*", numwidth, qinset); | ^~~~~~~~~ -gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 display.c:406:35: warning: '%*d' directive output between 1 and 2147483647 bytes may cause result to exceed 'INT_MAX' [-Wformat-overflow=] 406 | sprintf(ali->aseq+pos, "*[%*d]*", numwidth, tinset); | ^~~ @@ -1018,6 +1054,13 @@ display.c:218:32: note: directive argument in the range [-2147483647, 2147483647] 218 | sprintf(ali->aseq+pos, "*[%*d]*", numwidth, tinset); | ^~~~~~~~~ +gcc -g -O2 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 -ffile-prefix-map=/build/infernal-1.1.4=. -fstack-protector-strong -Wformat -Werror=format-security -msse2 -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 @@ -1075,24 +1118,24 @@ make[2]: Leaving directory '/build/infernal-1.1.4' make[1]: Leaving directory '/build/infernal-1.1.4' dh_auto_test - make -j15 check "TESTSUITEFLAGS=-j15 --verbose" VERBOSE=1 + make -j16 check "TESTSUITEFLAGS=-j16 --verbose" VERBOSE=1 make[1]: Entering directory '/build/infernal-1.1.4' SUBDIR easel make[2]: Entering directory '/build/infernal-1.1.4/easel' - GEN esl_bitfield_utest - GEN esl_cluster_utest - GEN esl_alloc_utest - GEN esl_buffer_utest GEN easel_utest GEN esl_alphabet_utest - GEN esl_dirichlet_utest + GEN esl_buffer_utest + GEN esl_alloc_utest + GEN esl_bitfield_utest + GEN esl_cluster_utest GEN esl_cpu_utest + GEN esl_dirichlet_utest GEN esl_distance_utest + GEN esl_exponential_utest GEN esl_dsqdata_utest GEN esl_dmatrix_utest - GEN esl_exponential_utest - GEN esl_fileparser_utest GEN esl_gamma_utest + GEN esl_fileparser_utest GEN esl_gencode_utest GEN esl_getopts_utest GEN esl_graph_utest @@ -1108,14 +1151,14 @@ GEN esl_mem_utest GEN esl_minimizer_utest GEN esl_mixdchlet_utest - GEN esl_msacluster_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_phylip_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 @@ -1123,8 +1166,8 @@ GEN esl_normal_utest GEN esl_quicksort_utest GEN esl_random_utest - GEN esl_randomseq_utest GEN esl_rand64_utest + GEN esl_randomseq_utest GEN esl_ratematrix_utest GEN esl_red_black_utest GEN esl_recorder_utest @@ -1166,17 +1209,17 @@ GEN build_utest GEN generic_fwdback_utest GEN generic_fwdback_chk_utest - GEN generic_stotrace_utest - GEN generic_viterbi_utest GEN generic_msv_utest + GEN generic_viterbi_utest + GEN generic_stotrace_utest GEN hmmer_utest - GEN modelconfig_utest GEN logsum_utest + GEN modelconfig_utest GEN seqmodel_utest + GEN p7_domain_utest GEN p7_alidisplay_utest GEN p7_bg_utest GEN p7_gmx_utest - GEN p7_domain_utest GEN p7_gmxchk_utest GEN p7_hit_utest GEN p7_hmmd_search_stats_utest @@ -1186,8 +1229,8 @@ GEN p7_tophits_utest GEN p7_trace_utest GEN p7_scoredata_utest - GEN hmmpgmd2msa_utest GEN itest_brute + GEN hmmpgmd2msa_utest GEN hmmd_search_status_utest SUBDIR impl_sse make[4]: Entering directory '/build/infernal-1.1.4/hmmer/src/impl_sse' @@ -1195,20 +1238,20 @@ GEN fwdback_utest GEN io_utest GEN msvfilter_utest + GEN stotrace_utest GEN null2_utest GEN optacc_utest GEN vitfilter_utest - GEN stotrace_utest make[4]: Leaving directory '/build/infernal-1.1.4/hmmer/src/impl_sse' make[3]: Leaving directory '/build/infernal-1.1.4/hmmer/src' make[2]: Leaving directory '/build/infernal-1.1.4/hmmer' SUBDIR src make[2]: Entering directory '/build/infernal-1.1.4/src' SUBDIR impl_sse - CC itest_brute.o make[3]: Entering directory '/build/infernal-1.1.4/src/impl_sse' make[3]: 'libinfernal-impl.stamp' is up to date. make[3]: Leaving directory '/build/infernal-1.1.4/src/impl_sse' + CC itest_brute.o GEN cm_tophits_utest GEN itest_brute SUBDIR impl_sse @@ -1313,8 +1356,8 @@ System information: -Mon Apr 17 21:41:16 -12 2023 -Linux ionos1-amd64 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) x86_64 GNU/Linux +Tue May 21 06:23:14 +14 2024 +Linux i-capture-the-hostname 6.1.0-0.deb11.5-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.12-1~bpo11+1 (2023-03-05) x86_64 GNU/Linux make[3]: Leaving directory '/build/infernal-1.1.4/easel/testsuite' make[2]: Leaving directory '/build/infernal-1.1.4/easel' SUBDIR hmmer/testsuite @@ -1634,8 +1677,8 @@ System information: -Mon Apr 17 21:41:45 -12 2023 -Linux ionos1-amd64 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) x86_64 GNU/Linux +Tue May 21 06:24:48 +14 2024 +Linux i-capture-the-hostname 6.1.0-0.deb11.5-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.12-1~bpo11+1 (2023-03-05) x86_64 GNU/Linux make[2]: Leaving directory '/build/infernal-1.1.4/hmmer/testsuite' SUBDIR testsuite make[2]: Entering directory '/build/infernal-1.1.4/testsuite' @@ -1799,15 +1842,15 @@ System information: -Mon Apr 17 21:48:50 -12 2023 -Linux ionos1-amd64 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) x86_64 GNU/Linux +Tue May 21 06:42:38 +14 2024 +Linux i-capture-the-hostname 6.1.0-0.deb11.5-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.12-1~bpo11+1 (2023-03-05) x86_64 GNU/Linux make[2]: Leaving directory '/build/infernal-1.1.4/testsuite' make[1]: Leaving directory '/build/infernal-1.1.4' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install-arch make[1]: Entering directory '/build/infernal-1.1.4' -/usr/bin/make install -j15 AM_UPDATE_INFO_DIR=no V=1 prefix=/build/infernal-1.1.4/debian/tmp +/usr/bin/make install -j16 AM_UPDATE_INFO_DIR=no V=1 prefix=/build/infernal-1.1.4/debian/tmp make[2]: Entering directory '/build/infernal-1.1.4' /usr/bin/install -c -d /build/infernal-1.1.4/debian/tmp/bin /usr/bin/install -c -d /build/infernal-1.1.4/debian/tmp/share/man/man1 @@ -1882,9 +1925,9 @@ 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_1.1.4-1_amd64.deb'. dpkg-deb: building package 'infernal-dbgsym' in '../infernal-dbgsym_1.1.4-1_amd64.deb'. dpkg-deb: building package 'infernal-doc' in '../infernal-doc_1.1.4-1_all.deb'. -dpkg-deb: building package 'infernal' in '../infernal_1.1.4-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../infernal_1.1.4-1_amd64.buildinfo dpkg-genchanges --build=binary -O../infernal_1.1.4-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1892,12 +1935,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/151838/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/151838/tmp/hooks/B01_cleanup finished 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/447473 and its subdirectories -I: Current time: Mon Apr 17 21:50:00 -12 2023 -I: pbuilder-time-stamp: 1681811400 +I: removing directory /srv/workspace/pbuilder/151838 and its subdirectories +I: Current time: Tue May 21 06:45:35 +14 2024 +I: pbuilder-time-stamp: 1716223535