Diff of the two buildlogs: -- --- b1/build.log 2021-08-24 12:02:20.067463037 +0000 +++ b2/build.log 2021-08-24 12:25:32.299414486 +0000 @@ -1,6 +1,7 @@ +W: cgroups are not available on the host, not using them. I: pbuilder: network access will be disabled during build -I: Current time: Mon Aug 23 23:54:41 -12 2021 -I: pbuilder-time-stamp: 1629806081 +I: Current time: Tue Sep 27 08:25:23 +14 2022 +I: pbuilder-time-stamp: 1664216723 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration @@ -17,7 +18,7 @@ I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error -gpgv: Signature made Sun Jul 15 22:31:51 2018 -12 +gpgv: Signature made Tue Jul 17 00:31:51 2018 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -31,136 +32,169 @@ dpkg-source: info: applying spelling.patch I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1092551/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/464878/tmp/hooks/D01_modify_environment starting +debug: Running on ionos5-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 +Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' +Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' +Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' +Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by 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/464878/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/464878/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='' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="0" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.0.3(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= + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='e1d566e3333749e7af776ff380a9c6ff' - 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='1092551' - PS1='# ' - PS2='> ' + 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=464878 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/tmp.pHKJcWkEMK/pbuilderrc_KCeY --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.pHKJcWkEMK/b1 --logfile b1/build.log infernal_1.1.2-2.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/tmp.pHKJcWkEMK/pbuilderrc_ACRY --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.pHKJcWkEMK/b2 --logfile b2/build.log infernal_1.1.2-2.dsc' + SUDO_GID=110 + SUDO_UID=105 + 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 5.10.0-8-amd64 #1 SMP Debian 5.10.46-4 (2021-08-03) x86_64 GNU/Linux + Linux i-capture-the-hostname 5.10.0-8-amd64 #1 SMP Debian 5.10.46-4 (2021-08-03) x86_64 GNU/Linux I: ls -l /bin total 5116 - -rwxr-xr-x 1 root root 1168776 Apr 17 2019 bash - -rwxr-xr-x 3 root root 38984 Jul 10 2019 bunzip2 - -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzcat - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep - -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzip2 - -rwxr-xr-x 1 root root 14328 Jul 10 2019 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore - -rwxr-xr-x 1 root root 43744 Feb 28 2019 cat - -rwxr-xr-x 1 root root 64320 Feb 28 2019 chgrp - -rwxr-xr-x 1 root root 64288 Feb 28 2019 chmod - -rwxr-xr-x 1 root root 72512 Feb 28 2019 chown - -rwxr-xr-x 1 root root 146880 Feb 28 2019 cp - -rwxr-xr-x 1 root root 121464 Jan 17 2019 dash - -rwxr-xr-x 1 root root 109408 Feb 28 2019 date - -rwxr-xr-x 1 root root 76712 Feb 28 2019 dd - -rwxr-xr-x 1 root root 93744 Feb 28 2019 df - -rwxr-xr-x 1 root root 138856 Feb 28 2019 dir - -rwxr-xr-x 1 root root 84288 Jan 9 2019 dmesg - lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname - -rwxr-xr-x 1 root root 39520 Feb 28 2019 echo - -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep - -rwxr-xr-x 1 root root 35424 Feb 28 2019 false - -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep - -rwxr-xr-x 1 root root 68880 Jan 9 2019 findmnt - -rwsr-xr-x 1 root root 34896 Apr 22 2020 fusermount - -rwxr-xr-x 1 root root 198976 Jan 7 2019 grep - -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip - -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe - -rwxr-xr-x 1 root root 98048 Jan 5 2019 gzip - -rwxr-xr-x 1 root root 26696 Sep 26 2018 hostname - -rwxr-xr-x 1 root root 68552 Feb 28 2019 ln - -rwxr-xr-x 1 root root 56760 Jul 26 2018 login - -rwxr-xr-x 1 root root 138856 Feb 28 2019 ls - -rwxr-xr-x 1 root root 108624 Jan 9 2019 lsblk - -rwxr-xr-x 1 root root 89088 Feb 28 2019 mkdir - -rwxr-xr-x 1 root root 68544 Feb 28 2019 mknod - -rwxr-xr-x 1 root root 43808 Feb 28 2019 mktemp - -rwxr-xr-x 1 root root 43008 Jan 9 2019 more - -rwsr-xr-x 1 root root 51280 Jan 9 2019 mount - -rwxr-xr-x 1 root root 14408 Jan 9 2019 mountpoint - -rwxr-xr-x 1 root root 138728 Feb 28 2019 mv - lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 39616 Feb 28 2019 pwd - lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash - -rwxr-xr-x 1 root root 47776 Feb 28 2019 readlink - -rwxr-xr-x 1 root root 68416 Feb 28 2019 rm - -rwxr-xr-x 1 root root 47776 Feb 28 2019 rmdir - -rwxr-xr-x 1 root root 23312 Jan 21 2019 run-parts - -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Aug 6 20:25 sh -> dash - -rwxr-xr-x 1 root root 39552 Feb 28 2019 sleep - -rwxr-xr-x 1 root root 80672 Feb 28 2019 stty - -rwsr-xr-x 1 root root 63568 Jan 9 2019 su - -rwxr-xr-x 1 root root 35488 Feb 28 2019 sync - -rwxr-xr-x 1 root root 445560 Apr 23 2019 tar - -rwxr-xr-x 1 root root 14440 Jan 21 2019 tempfile - -rwxr-xr-x 1 root root 97152 Feb 28 2019 touch - -rwxr-xr-x 1 root root 35424 Feb 28 2019 true - -rwxr-xr-x 1 root root 14328 Apr 22 2020 ulockmgr_server - -rwsr-xr-x 1 root root 34888 Jan 9 2019 umount - -rwxr-xr-x 1 root root 39584 Feb 28 2019 uname - -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress - -rwxr-xr-x 1 root root 138856 Feb 28 2019 vdir - -rwxr-xr-x 1 root root 34896 Jan 9 2019 wdctl - -rwxr-xr-x 1 root root 946 Jan 21 2019 which - lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat - -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp - -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff - -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep - -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep - -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce - -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep - -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless - -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore - -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew -I: user script /srv/workspace/pbuilder/1092551/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1168776 Apr 18 2019 bash + -rwxr-xr-x 3 root root 38984 Jul 11 2019 bunzip2 + -rwxr-xr-x 3 root root 38984 Jul 11 2019 bzcat + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2227 Jul 11 2019 bzdiff + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4877 Jun 25 2019 bzexe + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3641 Jul 11 2019 bzgrep + -rwxr-xr-x 3 root root 38984 Jul 11 2019 bzip2 + -rwxr-xr-x 1 root root 14328 Jul 11 2019 bzip2recover + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Jul 11 2019 bzmore + -rwxr-xr-x 1 root root 43744 Mar 1 2019 cat + -rwxr-xr-x 1 root root 64320 Mar 1 2019 chgrp + -rwxr-xr-x 1 root root 64288 Mar 1 2019 chmod + -rwxr-xr-x 1 root root 72512 Mar 1 2019 chown + -rwxr-xr-x 1 root root 146880 Mar 1 2019 cp + -rwxr-xr-x 1 root root 121464 Jan 18 2019 dash + -rwxr-xr-x 1 root root 109408 Mar 1 2019 date + -rwxr-xr-x 1 root root 76712 Mar 1 2019 dd + -rwxr-xr-x 1 root root 93744 Mar 1 2019 df + -rwxr-xr-x 1 root root 138856 Mar 1 2019 dir + -rwxr-xr-x 1 root root 84288 Jan 10 2019 dmesg + lrwxrwxrwx 1 root root 8 Sep 27 2018 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Sep 27 2018 domainname -> hostname + -rwxr-xr-x 1 root root 39520 Mar 1 2019 echo + -rwxr-xr-x 1 root root 28 Jan 8 2019 egrep + -rwxr-xr-x 1 root root 35424 Mar 1 2019 false + -rwxr-xr-x 1 root root 28 Jan 8 2019 fgrep + -rwxr-xr-x 1 root root 68880 Jan 10 2019 findmnt + -rwsr-xr-x 1 root root 34896 Apr 23 2020 fusermount + -rwxr-xr-x 1 root root 198976 Jan 8 2019 grep + -rwxr-xr-x 2 root root 2345 Jan 6 2019 gunzip + -rwxr-xr-x 1 root root 6375 Jan 6 2019 gzexe + -rwxr-xr-x 1 root root 98048 Jan 6 2019 gzip + -rwxr-xr-x 1 root root 26696 Sep 27 2018 hostname + -rwxr-xr-x 1 root root 68552 Mar 1 2019 ln + -rwxr-xr-x 1 root root 56760 Jul 27 2018 login + -rwxr-xr-x 1 root root 138856 Mar 1 2019 ls + -rwxr-xr-x 1 root root 108624 Jan 10 2019 lsblk + -rwxr-xr-x 1 root root 89088 Mar 1 2019 mkdir + -rwxr-xr-x 1 root root 68544 Mar 1 2019 mknod + -rwxr-xr-x 1 root root 43808 Mar 1 2019 mktemp + -rwxr-xr-x 1 root root 43008 Jan 10 2019 more + -rwsr-xr-x 1 root root 51280 Jan 10 2019 mount + -rwxr-xr-x 1 root root 14408 Jan 10 2019 mountpoint + -rwxr-xr-x 1 root root 138728 Mar 1 2019 mv + lrwxrwxrwx 1 root root 8 Sep 27 2018 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Feb 15 2019 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 39616 Mar 1 2019 pwd + lrwxrwxrwx 1 root root 4 Apr 18 2019 rbash -> bash + -rwxr-xr-x 1 root root 47776 Mar 1 2019 readlink + -rwxr-xr-x 1 root root 68416 Mar 1 2019 rm + -rwxr-xr-x 1 root root 47776 Mar 1 2019 rmdir + -rwxr-xr-x 1 root root 23312 Jan 22 2019 run-parts + -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Sep 27 08:25 sh -> bash + lrwxrwxrwx 1 root root 4 Sep 10 04:46 sh.distrib -> dash + -rwxr-xr-x 1 root root 39552 Mar 1 2019 sleep + -rwxr-xr-x 1 root root 80672 Mar 1 2019 stty + -rwsr-xr-x 1 root root 63568 Jan 10 2019 su + -rwxr-xr-x 1 root root 35488 Mar 1 2019 sync + -rwxr-xr-x 1 root root 445560 Apr 24 2019 tar + -rwxr-xr-x 1 root root 14440 Jan 22 2019 tempfile + -rwxr-xr-x 1 root root 97152 Mar 1 2019 touch + -rwxr-xr-x 1 root root 35424 Mar 1 2019 true + -rwxr-xr-x 1 root root 14328 Apr 23 2020 ulockmgr_server + -rwsr-xr-x 1 root root 34888 Jan 10 2019 umount + -rwxr-xr-x 1 root root 39584 Mar 1 2019 uname + -rwxr-xr-x 2 root root 2345 Jan 6 2019 uncompress + -rwxr-xr-x 1 root root 138856 Mar 1 2019 vdir + -rwxr-xr-x 1 root root 34896 Jan 10 2019 wdctl + -rwxr-xr-x 1 root root 946 Jan 22 2019 which + lrwxrwxrwx 1 root root 8 Sep 27 2018 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1983 Jan 6 2019 zcat + -rwxr-xr-x 1 root root 1677 Jan 6 2019 zcmp + -rwxr-xr-x 1 root root 5879 Jan 6 2019 zdiff + -rwxr-xr-x 1 root root 29 Jan 6 2019 zegrep + -rwxr-xr-x 1 root root 29 Jan 6 2019 zfgrep + -rwxr-xr-x 1 root root 2080 Jan 6 2019 zforce + -rwxr-xr-x 1 root root 7584 Jan 6 2019 zgrep + -rwxr-xr-x 1 root root 2205 Jan 6 2019 zless + -rwxr-xr-x 1 root root 1841 Jan 6 2019 zmore + -rwxr-xr-x 1 root root 4552 Jan 6 2019 znew +I: user script /srv/workspace/pbuilder/464878/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -232,7 +266,7 @@ Get: 32 http://deb.debian.org/debian buster/main amd64 po-debconf all 1.0.21 [248 kB] Get: 33 http://deb.debian.org/debian buster/main amd64 debhelper all 12.1.1 [1016 kB] Get: 34 http://deb.debian.org/debian buster/main amd64 libperl4-corelibs-perl all 0.004-1+deb10u1 [38.4 kB] -Fetched 19.1 MB in 0s (73.9 MB/s) +Fetched 19.1 MB in 1s (35.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0: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 ... 19195 files and directories currently installed.) @@ -391,7 +425,8 @@ fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/infernal-1.1.2/ && 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_1.1.2-2_source.changes +hostname: Name or service not known +I: Running cd /build/infernal-1.1.2/ && 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_1.1.2-2_source.changes dpkg-buildpackage: info: source package infernal dpkg-buildpackage: info: source version 1.1.2-2 dpkg-buildpackage: info: source distribution unstable @@ -558,7 +593,7 @@ DP implementation: sse dh_auto_build - make -j15 + make -j16 make[1]: Entering directory '/build/infernal-1.1.2' SUBDIR easel make[2]: Entering directory '/build/infernal-1.1.2/easel' @@ -572,11 +607,12 @@ CC esl_distance.o CC esl_dmatrix.o CC esl_dsqdata.o - CC esl_fileparser.o CC esl_exponential.o + CC esl_fileparser.o CC esl_gamma.o - CC esl_getopts.o CC esl_gencode.o + CC esl_getopts.o + CC esl_gev.o esl_fileparser.c: In function 'esl_fileparser_NextLine': esl_fileparser.c:278:21: warning: comparison between pointer and zero character constant [-Wpointer-compare] while (efp->s != '\0' && isspace(*(efp->s))) efp->s++; @@ -591,7 +627,6 @@ esl_fileparser.c:359:10: note: did you mean to dereference the pointer? while (efp->s != '\0' && isspace(*(efp->s))) efp->s++; ^ - CC esl_gev.o CC esl_gumbel.o CC esl_heap.o CC esl_histogram.o @@ -648,13 +683,13 @@ CC esl-alimanip.o CC esl-alimap.o CC esl-alimask.o - CC esl-alipid.o CC esl-alimerge.o + CC esl-alipid.o CC esl-alirev.o CC esl-alistat.o CC esl-cluster.o - CC esl-compstruct.o CC esl-compalign.o + CC esl-compstruct.o CC esl-construct.o CC esl-histplot.o CC esl-mask.o @@ -677,13 +712,13 @@ GEN esl-selectn GEN esl-seqrange GEN esl-seqstat - GEN esl-sfetch - GEN esl-shuffle GEN esl-translate GEN esl-weight - GEN esl-alimap + GEN esl-sfetch + GEN esl-shuffle GEN esl-compalign GEN esl-construct + GEN esl-alimap GEN esl-alimask GEN esl-reformat GEN esl-alistat @@ -722,8 +757,8 @@ CC generic_decoding.o CC generic_fwdback.o CC generic_fwdback_chk.o - CC generic_null2.o CC generic_fwdback_banded.o + CC generic_null2.o CC generic_msv.o CC generic_optacc.o CC generic_stotrace.o @@ -788,15 +823,15 @@ AR libhmmer-src.stamp SUBDIR impl_sse make[4]: Entering directory '/build/infernal-1.1.2/hmmer/src/impl_sse' - CC fwdback.o CC decoding.o - CC ssvfilter.o + CC fwdback.o CC io.o + CC ssvfilter.o CC msvfilter.o CC null2.o CC optacc.o - CC vitfilter.o CC stotrace.o + CC vitfilter.o CC p7_omx.o CC p7_oprofile.o CC mpi.o @@ -811,8 +846,8 @@ GEN hmmlogo GEN hmmpress GEN hmmscan - GEN hmmsim GEN hmmsearch + GEN hmmsim GEN hmmstat GEN jackhmmer GEN phmmer @@ -845,10 +880,12 @@ CC cm_file.o CC cm_modelconfig.o CC cm_modelmaker.o - CC cm_parsetree.o CC cm_mx.o + CC cm_parsetree.o CC cm_pipeline.o CC cm_qdband.o + CC cm_submodel.o + CC cm_tophits.o cm_alidisplay.c: In function 'cm_alidisplay_Create': cm_alidisplay.c:376:28: warning: '%*d' directive output between 1 and 2147483647 bytes may cause result to exceed 'INT_MAX' [-Wformat-overflow=] sprintf(ad->model+pos, "*[%*d]*", numwidth, qinset); @@ -862,8 +899,6 @@ cm_alidisplay.c:377:24: note: directive argument in the range [-2147483647, 2147483647] sprintf(ad->aseq+pos, "*[%*d]*", numwidth, tinset); ^~~~~~~~~ - CC cm_submodel.o - CC cm_tophits.o CC cm_trunc.o CC cm_p7_band.o CC cm_p7_domaindef.o @@ -879,8 +914,6 @@ CC errors.o CC eweight.o CC hmmband.o - CC logsum.o - CC mpisupport.o display.c: In function 'CreateFancyAli': display.c:416:28: warning: '%*d' directive output between 1 and 2147483647 bytes may cause result to exceed 'INT_MAX' [-Wformat-overflow=] sprintf(ali->cseq+pos, "*[%*d]*", numwidth, qinset); @@ -900,6 +933,8 @@ display.c:229:25: note: directive argument in the range [-2147483647, 2147483647] sprintf(ali->aseq+pos, "*[%*d]*", numwidth, tinset); ^~~~~~~~~ + CC logsum.o + CC mpisupport.o CC prior.o CC rnamat.o CC stats.o @@ -930,19 +965,19 @@ CC sse_util.o AR libinfernal-impl.stamp make[3]: Leaving directory '/build/infernal-1.1.2/src/impl_sse' - GEN cmbuild GEN cmalign + GEN cmbuild GEN cmcalibrate GEN cmconvert GEN cmemit - GEN cmpress GEN cmfetch + GEN cmpress + GEN cmscan GEN cmsearch GEN cmstat - GEN cmscan GEN trcyk - GEN bandcyk-truncation-test GEN bandcyk-montecarlo-test + GEN bandcyk-truncation-test GEN cp9-test GEN sub_cm-test GEN truncyk_check @@ -961,25 +996,26 @@ make[2]: Leaving directory '/build/infernal-1.1.2/src/impl_sse' make[1]: Leaving directory '/build/infernal-1.1.2' dh_auto_test - make -j15 check VERBOSE=1 + make -j16 check VERBOSE=1 make[1]: Entering directory '/build/infernal-1.1.2' SUBDIR easel make[2]: Entering directory '/build/infernal-1.1.2/easel' + GEN esl_alphabet_utest + GEN esl_buffer_utest + GEN esl_cluster_utest GEN easel_utest GEN esl_dirichlet_utest GEN esl_distance_utest - GEN esl_alphabet_utest GEN esl_dmatrix_utest - GEN esl_buffer_utest - GEN esl_gamma_utest GEN esl_dsqdata_utest - GEN esl_cluster_utest - GEN esl_gencode_utest GEN esl_exponential_utest - GEN esl_heap_utest GEN esl_fileparser_utest - GEN esl_getopts_utest + GEN esl_gencode_utest GEN esl_gumbel_utest + GEN esl_gamma_utest + GEN esl_getopts_utest + GEN esl_heap_utest + GEN esl_histogram_utest ./esl_fileparser.c: In function 'esl_fileparser_NextLine': ./esl_fileparser.c:278:21: warning: comparison between pointer and zero character constant [-Wpointer-compare] while (efp->s != '\0' && isspace(*(efp->s))) efp->s++; @@ -994,7 +1030,6 @@ ./esl_fileparser.c:359:10: note: did you mean to dereference the pointer? while (efp->s != '\0' && isspace(*(efp->s))) efp->s++; ^ - GEN esl_histogram_utest GEN esl_hmm_utest GEN esl_hyperexp_utest GEN esl_keyhash_utest @@ -1008,7 +1043,6 @@ ./esl_buffer.c:2354:3: note: 'snprintf' output between 4 and 35 bytes into a destination of size 32 snprintf(gzipfile, 32, "%s.gz", tmpfile); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - GEN esl_msafile_utest ./esl_dsqdata.c: In function 'utest_readwrite': ./esl_dsqdata.c:1501:29: warning: '-db.dsqi' directive output may be truncated writing 8 bytes into a region of size between 1 and 32 [-Wformat-truncation=] snprintf(basename, 32, "%s-db.dsqi", tmpfile); remove(basename); @@ -1028,34 +1062,31 @@ ./esl_dsqdata.c:1503:3: note: 'snprintf' output between 9 and 40 bytes into a destination of size 32 snprintf(basename, 32, "%s-db.dsqs", tmpfile); remove(basename); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - GEN esl_msafile_a2m_utest - GEN esl_msafile_phylip_utest GEN esl_msafile2_utest + GEN esl_msafile_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_random_utest GEN esl_normal_utest + GEN esl_random_utest GEN esl_randomseq_utest GEN esl_ratematrix_utest - GEN esl_regexp_utest GEN esl_recorder_utest + GEN esl_regexp_utest GEN esl_rootfinder_utest GEN esl_scorematrix_utest GEN esl_sq_utest - GEN esl_sse_utest GEN esl_sqio_utest + GEN esl_sse_utest GEN esl_ssi_utest GEN esl_stack_utest GEN esl_stats_utest GEN esl_stretchexp_utest - GEN esl_tree_utest - GEN esl_vectorops_utest - GEN esl_weibull_utest - GEN esl_wuss_utest ./esl_sqio.c: In function 'main': ./esl_sqio.c:1897:23: warning: '.ssi' directive writing 4 bytes into a region of size between 1 and 32 [-Wformat-overflow=] sprintf(ssifile, "%s.ssi", tmpfile); @@ -1063,6 +1094,10 @@ ./esl_sqio.c:1897:3: note: 'sprintf' output between 5 and 36 bytes into a destination of size 32 sprintf(ssifile, "%s.ssi", tmpfile); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + GEN esl_tree_utest + GEN esl_vectorops_utest + GEN esl_weibull_utest + GEN esl_wuss_utest SUBDIR miniapps make[3]: Entering directory '/build/infernal-1.1.2/easel/miniapps' make[3]: Nothing to be done for 'tests'. @@ -1084,24 +1119,24 @@ SUBDIR src make[3]: Entering directory '/build/infernal-1.1.2/hmmer/src' SUBDIR impl_sse - CC itest_brute.o make[4]: Entering directory '/build/infernal-1.1.2/hmmer/src/impl_sse' make[4]: 'libhmmer-impl.stamp' is up to date. make[4]: Leaving directory '/build/infernal-1.1.2/hmmer/src/impl_sse' + CC itest_brute.o + GEN build_utest GEN generic_fwdback_utest GEN generic_msv_utest - GEN logsum_utest GEN generic_fwdback_chk_utest - GEN build_utest GEN generic_stotrace_utest GEN hmmer_utest + GEN generic_viterbi_utest + GEN logsum_utest GEN modelconfig_utest - GEN p7_alidisplay_utest - GEN p7_gmx_utest - GEN p7_gmxchk_utest GEN p7_bg_utest + GEN p7_gmxchk_utest + GEN p7_gmx_utest + GEN p7_alidisplay_utest GEN seqmodel_utest - GEN generic_viterbi_utest GEN p7_hmm_utest GEN p7_hmmfile_utest GEN p7_profile_utest @@ -1112,14 +1147,14 @@ GEN itest_brute SUBDIR impl_sse make[4]: Entering directory '/build/infernal-1.1.2/hmmer/src/impl_sse' - GEN decoding_utest GEN fwdback_utest - GEN stotrace_utest + GEN decoding_utest GEN null2_utest GEN io_utest - GEN optacc_utest GEN msvfilter_utest GEN vitfilter_utest + GEN stotrace_utest + GEN optacc_utest make[4]: Leaving directory '/build/infernal-1.1.2/hmmer/src/impl_sse' make[3]: Leaving directory '/build/infernal-1.1.2/hmmer/src' make[2]: Leaving directory '/build/infernal-1.1.2/hmmer' @@ -1220,8 +1255,8 @@ System information: -Mon Aug 23 23:56:08 -12 2021 -Linux ionos1-amd64 5.10.0-8-amd64 #1 SMP Debian 5.10.46-4 (2021-08-03) x86_64 GNU/Linux +Tue Sep 27 08:29:49 +14 2022 +Linux i-capture-the-hostname 5.10.0-8-amd64 #1 SMP Debian 5.10.46-4 (2021-08-03) x86_64 GNU/Linux make[3]: Leaving directory '/build/infernal-1.1.2/easel/testsuite' make[2]: Leaving directory '/build/infernal-1.1.2/easel' if test -d hmmer/easel && ! test -e hmmer/easel/miniapps/esl-afetch; then cp easel/miniapps/esl-afetch hmmer/easel/miniapps; fi @@ -1500,8 +1535,8 @@ System information: -Mon Aug 23 23:56:36 -12 2021 -Linux ionos1-amd64 5.10.0-8-amd64 #1 SMP Debian 5.10.46-4 (2021-08-03) x86_64 GNU/Linux +Tue Sep 27 08:31:33 +14 2022 +Linux i-capture-the-hostname 5.10.0-8-amd64 #1 SMP Debian 5.10.46-4 (2021-08-03) x86_64 GNU/Linux make[2]: Leaving directory '/build/infernal-1.1.2/hmmer/testsuite' if test -L hmmer/easel; then rm hmmer/easel; fi if test -L ./hmmer/easel; then rm ./hmmer/easel; fi @@ -1662,8 +1697,8 @@ System information: -Tue Aug 24 00:01:18 -12 2021 -Linux ionos1-amd64 5.10.0-8-amd64 #1 SMP Debian 5.10.46-4 (2021-08-03) x86_64 GNU/Linux +Tue Sep 27 08:45:55 +14 2022 +Linux i-capture-the-hostname 5.10.0-8-amd64 #1 SMP Debian 5.10.46-4 (2021-08-03) x86_64 GNU/Linux make[2]: Leaving directory '/build/infernal-1.1.2/testsuite' make[1]: Leaving directory '/build/infernal-1.1.2' create-stamp debian/debhelper-build-stamp @@ -1737,9 +1772,9 @@ 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_1.1.2-2_amd64.deb'. -dpkg-deb: building package 'infernal-dbgsym' in '../infernal-dbgsym_1.1.2-2_amd64.deb'. dpkg-deb: building package 'infernal-doc' in '../infernal-doc_1.1.2-2_all.deb'. +dpkg-deb: building package 'infernal-dbgsym' in '../infernal-dbgsym_1.1.2-2_amd64.deb'. +dpkg-deb: building package 'infernal' in '../infernal_1.1.2-2_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../infernal_1.1.2-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1747,12 +1782,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/464878/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/464878/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/1092551 and its subdirectories -I: Current time: Tue Aug 24 00:02:19 -12 2021 -I: pbuilder-time-stamp: 1629806539 +I: removing directory /srv/workspace/pbuilder/464878 and its subdirectories +I: Current time: Tue Sep 27 08:48:32 +14 2022 +I: pbuilder-time-stamp: 1664218112