Diff of the two buildlogs: -- --- b1/build.log 2021-05-24 22:23:51.131566561 +0000 +++ b2/build.log 2021-05-24 22:26:56.360314880 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon May 24 09:56:16 -12 2021 -I: pbuilder-time-stamp: 1621893376 +I: Current time: Mon Jun 27 18:46:50 +14 2022 +I: pbuilder-time-stamp: 1656305210 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration @@ -17,8 +17,8 @@ I: copying [./beast2-mcmc_2.6.3+dfsg-2.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' -gpgv: keyblock resource '/tmp/dpkg-verify-sig.J18k1Fue/trustedkeys.kbx': General error -gpgv: Signature made Sat Oct 3 06:52:00 2020 -12 +gpgv: keyblock resource '/tmp/dpkg-verify-sig.XNdG2IoS/trustedkeys.kbx': General error +gpgv: Signature made Sun Oct 4 08:52:00 2020 +14 gpgv: using RSA key 33CB284313E90BD27DCB4523600316A6DC277476 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./beast2-mcmc_2.6.3+dfsg-2.dsc @@ -37,137 +37,171 @@ dpkg-source: info: applying handling_minor_issues_in_tests.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/29697/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/37802/tmp/hooks/D01_modify_environment starting +debug: Running on ionos16-i386. +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/37802/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/37802/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='i386' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=10' - DISTRIBUTION='' - HOME='/root' - HOST_ARCH='i386' + 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]="1" [2]="4" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") + BASH_VERSION='5.1.4(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=i386 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=18' + DIRSTACK=() + DISTRIBUTION= + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=i686 + HOST_ARCH=i386 IFS=' ' - INVOCATION_ID='9417589ec04e4461bc4982379b2dc6af' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - LD_LIBRARY_PATH='/usr/lib/libeatmydata' - LD_PRELOAD='libeatmydata.so' - 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='29697' - PS1='# ' - PS2='> ' + INVOCATION_ID=e3ffc2e57c8d4b8d9de7b87afdb495a0 + LANG=C + LANGUAGE=de_CH:de + LC_ALL=C + LD_LIBRARY_PATH=/usr/lib/libeatmydata + LD_PRELOAD=libeatmydata.so + MACHTYPE=i686-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=37802 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.ASj2NfnFqV/pbuilderrc_ERvB --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.ASj2NfnFqV/b1 --logfile b1/build.log beast2-mcmc_2.6.3+dfsg-2.dsc' - SUDO_GID='112' - SUDO_UID='107' - 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.ASj2NfnFqV/pbuilderrc_OqlD --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.ASj2NfnFqV/b2 --logfile b2/build.log --extrapackages usrmerge beast2-mcmc_2.6.3+dfsg-2.dsc' + SUDO_GID=112 + SUDO_UID=107 + 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 ionos12-i386 4.19.0-16-686-pae #1 SMP Debian 4.19.181-1 (2021-03-19) i686 GNU/Linux + Linux i-capture-the-hostname 4.19.0-16-amd64 #1 SMP Debian 4.19.181-1 (2021-03-19) x86_64 GNU/Linux I: ls -l /bin - total 5784 - -rwxr-xr-x 1 root root 1367848 Feb 24 08:57 bash - -rwxr-xr-x 3 root root 38280 Jul 20 2020 bunzip2 - -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzcat - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep - -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzip2 - -rwxr-xr-x 1 root root 17768 Jul 20 2020 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore - -rwxr-xr-x 1 root root 38824 Sep 22 2020 cat - -rwxr-xr-x 1 root root 71624 Sep 22 2020 chgrp - -rwxr-xr-x 1 root root 67528 Sep 22 2020 chmod - -rwxr-xr-x 1 root root 75752 Sep 22 2020 chown - -rwxr-xr-x 1 root root 157960 Sep 22 2020 cp - -rwxr-xr-x 1 root root 128724 Dec 10 01:23 dash - -rwxr-xr-x 1 root root 124904 Sep 22 2020 date - -rwxr-xr-x 1 root root 92172 Sep 22 2020 dd - -rwxr-xr-x 1 root root 100752 Sep 22 2020 df - -rwxr-xr-x 1 root root 153964 Sep 22 2020 dir - -rwxr-xr-x 1 root root 83644 Feb 7 02:38 dmesg - lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname - -rwxr-xr-x 1 root root 34664 Sep 22 2020 echo - -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep - -rwxr-xr-x 1 root root 34664 Sep 22 2020 false - -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep - -rwxr-xr-x 1 root root 71928 Feb 7 02:38 findmnt - -rwsr-xr-x 1 root root 30112 Feb 26 04:12 fusermount - -rwxr-xr-x 1 root root 210488 Nov 9 2020 grep - -rwxr-xr-x 2 root root 2346 Mar 2 11:30 gunzip - -rwxr-xr-x 1 root root 6376 Mar 2 11:30 gzexe - -rwxr-xr-x 1 root root 100952 Mar 2 11:30 gzip - -rwxr-xr-x 1 root root 21916 Nov 6 2019 hostname - -rwxr-xr-x 1 root root 83980 Sep 22 2020 ln - -rwxr-xr-x 1 root root 55572 Feb 7 2020 login - -rwxr-xr-x 1 root root 153964 Sep 22 2020 ls - -rwxr-xr-x 1 root root 153124 Feb 7 02:38 lsblk - -rwxr-xr-x 1 root root 96328 Sep 22 2020 mkdir - -rwxr-xr-x 1 root root 79912 Sep 22 2020 mknod - -rwxr-xr-x 1 root root 47048 Sep 22 2020 mktemp - -rwxr-xr-x 1 root root 58920 Feb 7 02:38 more - -rwsr-xr-x 1 root root 50720 Feb 7 02:38 mount - -rwxr-xr-x 1 root root 13856 Feb 7 02:38 mountpoint - -rwxr-xr-x 1 root root 157996 Sep 22 2020 mv - lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 38824 Sep 22 2020 pwd - lrwxrwxrwx 1 root root 4 Feb 24 08:57 rbash -> bash - -rwxr-xr-x 1 root root 46984 Sep 22 2020 readlink - -rwxr-xr-x 1 root root 75720 Sep 22 2020 rm - -rwxr-xr-x 1 root root 46984 Sep 22 2020 rmdir - -rwxr-xr-x 1 root root 22292 Sep 27 2020 run-parts - -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 May 23 21:27 sh -> dash - -rwxr-xr-x 1 root root 34696 Sep 22 2020 sleep - -rwxr-xr-x 1 root root 83880 Sep 22 2020 stty - -rwsr-xr-x 1 root root 79396 Feb 7 02:38 su - -rwxr-xr-x 1 root root 34696 Sep 22 2020 sync - -rwxr-xr-x 1 root root 602584 Feb 16 21:55 tar - -rwxr-xr-x 1 root root 13860 Sep 27 2020 tempfile - -rwxr-xr-x 1 root root 108520 Sep 22 2020 touch - -rwxr-xr-x 1 root root 34664 Sep 22 2020 true - -rwxr-xr-x 1 root root 17768 Feb 26 04:12 ulockmgr_server - -rwsr-xr-x 1 root root 30236 Feb 7 02:38 umount - -rwxr-xr-x 1 root root 34664 Sep 22 2020 uname - -rwxr-xr-x 2 root root 2346 Mar 2 11:30 uncompress - -rwxr-xr-x 1 root root 153964 Sep 22 2020 vdir - -rwxr-xr-x 1 root root 63024 Feb 7 02:38 wdctl - lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Mar 2 11:30 zcat - -rwxr-xr-x 1 root root 1678 Mar 2 11:30 zcmp - -rwxr-xr-x 1 root root 5880 Mar 2 11:30 zdiff - -rwxr-xr-x 1 root root 29 Mar 2 11:30 zegrep - -rwxr-xr-x 1 root root 29 Mar 2 11:30 zfgrep - -rwxr-xr-x 1 root root 2081 Mar 2 11:30 zforce - -rwxr-xr-x 1 root root 7585 Mar 2 11:30 zgrep - -rwxr-xr-x 1 root root 2206 Mar 2 11:30 zless - -rwxr-xr-x 1 root root 1842 Mar 2 11:30 zmore - -rwxr-xr-x 1 root root 4553 Mar 2 11:30 znew -I: user script /srv/workspace/pbuilder/29697/tmp/hooks/D02_print_environment finished + total 5776 + -rwxr-xr-x 1 root root 1367848 Feb 25 2021 bash + -rwxr-xr-x 3 root root 38280 Jul 21 2020 bunzip2 + -rwxr-xr-x 3 root root 38280 Jul 21 2020 bzcat + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep + -rwxr-xr-x 3 root root 38280 Jul 21 2020 bzip2 + -rwxr-xr-x 1 root root 17768 Jul 21 2020 bzip2recover + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore + -rwxr-xr-x 1 root root 38824 Sep 23 2020 cat + -rwxr-xr-x 1 root root 71624 Sep 23 2020 chgrp + -rwxr-xr-x 1 root root 67528 Sep 23 2020 chmod + -rwxr-xr-x 1 root root 75752 Sep 23 2020 chown + -rwxr-xr-x 1 root root 157960 Sep 23 2020 cp + -rwxr-xr-x 1 root root 128724 Dec 11 2020 dash + -rwxr-xr-x 1 root root 124904 Sep 23 2020 date + -rwxr-xr-x 1 root root 92172 Sep 23 2020 dd + -rwxr-xr-x 1 root root 100752 Sep 23 2020 df + -rwxr-xr-x 1 root root 153964 Sep 23 2020 dir + -rwxr-xr-x 1 root root 83644 Feb 8 2021 dmesg + lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname + -rwxr-xr-x 1 root root 34664 Sep 23 2020 echo + -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep + -rwxr-xr-x 1 root root 34664 Sep 23 2020 false + -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep + -rwxr-xr-x 1 root root 71928 Feb 8 2021 findmnt + -rwsr-xr-x 1 root root 30112 Feb 27 2021 fusermount + -rwxr-xr-x 1 root root 210488 Nov 10 2020 grep + -rwxr-xr-x 2 root root 2346 Mar 3 2021 gunzip + -rwxr-xr-x 1 root root 6376 Mar 3 2021 gzexe + -rwxr-xr-x 1 root root 100952 Mar 3 2021 gzip + -rwxr-xr-x 1 root root 21916 Nov 8 2019 hostname + -rwxr-xr-x 1 root root 83980 Sep 23 2020 ln + -rwxr-xr-x 1 root root 55572 Feb 8 2020 login + -rwxr-xr-x 1 root root 153964 Sep 23 2020 ls + -rwxr-xr-x 1 root root 153124 Feb 8 2021 lsblk + -rwxr-xr-x 1 root root 96328 Sep 23 2020 mkdir + -rwxr-xr-x 1 root root 79912 Sep 23 2020 mknod + -rwxr-xr-x 1 root root 47048 Sep 23 2020 mktemp + -rwxr-xr-x 1 root root 58920 Feb 8 2021 more + -rwsr-xr-x 1 root root 50720 Feb 8 2021 mount + -rwxr-xr-x 1 root root 13856 Feb 8 2021 mountpoint + -rwxr-xr-x 1 root root 157996 Sep 23 2020 mv + lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 19 2021 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 38824 Sep 23 2020 pwd + lrwxrwxrwx 1 root root 4 Feb 25 2021 rbash -> bash + -rwxr-xr-x 1 root root 46984 Sep 23 2020 readlink + -rwxr-xr-x 1 root root 75720 Sep 23 2020 rm + -rwxr-xr-x 1 root root 46984 Sep 23 2020 rmdir + -rwxr-xr-x 1 root root 22292 Sep 28 2020 run-parts + -rwxr-xr-x 1 root root 125036 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Jun 27 18:46 sh -> bash + lrwxrwxrwx 1 root root 4 Jun 27 05:46 sh.distrib -> dash + -rwxr-xr-x 1 root root 34696 Sep 23 2020 sleep + -rwxr-xr-x 1 root root 83880 Sep 23 2020 stty + -rwsr-xr-x 1 root root 79396 Feb 8 2021 su + -rwxr-xr-x 1 root root 34696 Sep 23 2020 sync + -rwxr-xr-x 1 root root 602584 Feb 17 2021 tar + -rwxr-xr-x 1 root root 13860 Sep 28 2020 tempfile + -rwxr-xr-x 1 root root 108520 Sep 23 2020 touch + -rwxr-xr-x 1 root root 34664 Sep 23 2020 true + -rwxr-xr-x 1 root root 17768 Feb 27 2021 ulockmgr_server + -rwsr-xr-x 1 root root 30236 Feb 8 2021 umount + -rwxr-xr-x 1 root root 34664 Sep 23 2020 uname + -rwxr-xr-x 2 root root 2346 Mar 3 2021 uncompress + -rwxr-xr-x 1 root root 153964 Sep 23 2020 vdir + -rwxr-xr-x 1 root root 63024 Feb 8 2021 wdctl + lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Mar 3 2021 zcat + -rwxr-xr-x 1 root root 1678 Mar 3 2021 zcmp + -rwxr-xr-x 1 root root 5880 Mar 3 2021 zdiff + -rwxr-xr-x 1 root root 29 Mar 3 2021 zegrep + -rwxr-xr-x 1 root root 29 Mar 3 2021 zfgrep + -rwxr-xr-x 1 root root 2081 Mar 3 2021 zforce + -rwxr-xr-x 1 root root 7585 Mar 3 2021 zgrep + -rwxr-xr-x 1 root root 2206 Mar 3 2021 zless + -rwxr-xr-x 1 root root 1842 Mar 3 2021 zmore + -rwxr-xr-x 1 root root 4553 Mar 3 2021 znew +I: user script /srv/workspace/pbuilder/37802/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -456,7 +490,7 @@ Get: 227 http://deb.debian.org/debian bullseye/main i386 texlive-latex-recommended all 2020.20210202-3 [14.5 MB] Get: 228 http://deb.debian.org/debian bullseye/main i386 texlive-pictures all 2020.20210202-3 [6743 kB] Get: 229 http://deb.debian.org/debian bullseye/main i386 texlive-latex-extra all 2020.20210202-3 [13.7 MB] -Fetched 515 MB in 2min 49s (3049 kB/s) +Fetched 515 MB in 8s (62.1 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19674 files and directories currently installed.) @@ -1427,135 +1461,135 @@ Setting up javahelper (0.78) ... Setting up ca-certificates-java (20190909) ... head: cannot open '/etc/ssl/certs/java/cacerts' for reading: No such file or directory -Adding debian:Comodo_AAA_Services_root.pem -Adding debian:QuoVadis_Root_CA_2_G3.pem -Adding debian:CA_Disig_Root_R2.pem -Adding debian:SwissSign_Gold_CA_-_G2.pem -Adding debian:DigiCert_Assured_ID_Root_CA.pem -Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem -Adding debian:SecureSign_RootCA11.pem -Adding debian:GTS_Root_R4.pem +Adding debian:COMODO_RSA_Certification_Authority.pem +Adding debian:IdenTrust_Commercial_Root_CA_1.pem +Adding debian:Security_Communication_Root_CA.pem +Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem -Adding debian:SecureTrust_CA.pem -Adding debian:SSL.com_Root_Certification_Authority_ECC.pem -Adding debian:SwissSign_Silver_CA_-_G2.pem +Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:GlobalSign_Root_CA_-_R2.pem -Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem -Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem -Adding debian:emSign_ECC_Root_CA_-_G3.pem -Adding debian:certSIGN_ROOT_CA.pem -Adding debian:T-TeleSec_GlobalRoot_Class_3.pem -Adding debian:QuoVadis_Root_CA.pem -Adding debian:TrustCor_RootCert_CA-1.pem -Adding debian:DST_Root_CA_X3.pem -Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem -Adding debian:AffirmTrust_Commercial.pem -Adding debian:USERTrust_RSA_Certification_Authority.pem -Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem -Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem -Adding debian:AffirmTrust_Networking.pem -Adding debian:Certum_Trusted_Network_CA.pem -Adding debian:IdenTrust_Commercial_Root_CA_1.pem -Adding debian:TeliaSonera_Root_CA_v1.pem -Adding debian:AffirmTrust_Premium.pem -Adding debian:Certigna.pem -Adding debian:Chambers_of_Commerce_Root_-_2008.pem -Adding debian:GlobalSign_Root_CA_-_R6.pem -Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem -Adding debian:Atos_TrustedRoot_2011.pem -Adding debian:Starfield_Class_2_CA.pem -Adding debian:UCA_Global_G2_Root.pem -Adding debian:NAVER_Global_Root_Certification_Authority.pem +Adding debian:Actalis_Authentication_Root_CA.pem +Adding debian:TWCA_Global_Root_CA.pem +Adding debian:COMODO_Certification_Authority.pem +Adding debian:ISRG_Root_X1.pem +Adding debian:Sonera_Class_2_Root_CA.pem +Adding debian:E-Tugra_Certification_Authority.pem Adding debian:Secure_Global_CA.pem -Adding debian:Amazon_Root_CA_3.pem -Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem +Adding debian:GTS_Root_R1.pem +Adding debian:NAVER_Global_Root_Certification_Authority.pem +Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem -Adding debian:Entrust_Root_Certification_Authority_-_G4.pem -Adding debian:Baltimore_CyberTrust_Root.pem -Adding debian:SZAFIR_ROOT_CA2.pem -Adding debian:USERTrust_ECC_Certification_Authority.pem -Adding debian:TrustCor_RootCert_CA-2.pem -Adding debian:DigiCert_Global_Root_CA.pem Adding debian:QuoVadis_Root_CA_2.pem -Adding debian:DigiCert_Assured_ID_Root_G3.pem -Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem -Adding debian:COMODO_RSA_Certification_Authority.pem -Adding debian:Cybertrust_Global_Root.pem -Adding debian:Microsec_e-Szigno_Root_CA_2009.pem -Adding debian:Trustis_FPS_Root_CA.pem -Adding debian:DigiCert_Global_Root_G3.pem -Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem -Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem -Adding debian:GeoTrust_Primary_Certification_Authority_-_G2.pem -Adding debian:QuoVadis_Root_CA_1_G3.pem +Adding debian:Amazon_Root_CA_2.pem +Adding debian:Global_Chambersign_Root_-_2008.pem +Adding debian:EC-ACC.pem +Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem +Adding debian:T-TeleSec_GlobalRoot_Class_3.pem +Adding debian:GTS_Root_R4.pem +Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem +Adding debian:Buypass_Class_3_Root_CA.pem +Adding debian:COMODO_ECC_Certification_Authority.pem +Adding debian:USERTrust_ECC_Certification_Authority.pem +Adding debian:Certigna.pem +Adding debian:AffirmTrust_Premium.pem +Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:QuoVadis_Root_CA_3.pem -Adding debian:Hongkong_Post_Root_CA_3.pem -Adding debian:Izenpe.com.pem -Adding debian:GDCA_TrustAUTH_R5_ROOT.pem -Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem -Adding debian:Sonera_Class_2_Root_CA.pem -Adding debian:VeriSign_Universal_Root_Certification_Authority.pem -Adding debian:ACCVRAIZ1.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem -Adding debian:Certigna_Root_CA.pem -Adding debian:DigiCert_Global_Root_G2.pem -Adding debian:AffirmTrust_Premium_ECC.pem -Adding debian:Hongkong_Post_Root_CA_1.pem -Adding debian:Staat_der_Nederlanden_Root_CA_-_G3.pem -Adding debian:GTS_Root_R3.pem -Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem -Adding debian:Buypass_Class_3_Root_CA.pem -Adding debian:emSign_ECC_Root_CA_-_C3.pem -Adding debian:GlobalSign_Root_CA.pem -Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem -Adding debian:CFCA_EV_ROOT.pem -Adding debian:TWCA_Root_Certification_Authority.pem -Adding debian:Global_Chambersign_Root_-_2008.pem -Adding debian:Security_Communication_RootCA2.pem -Adding debian:COMODO_Certification_Authority.pem -Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem -Adding debian:ISRG_Root_X1.pem -Adding debian:QuoVadis_Root_CA_3_G3.pem -Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem -Adding debian:GTS_Root_R2.pem -Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem -Adding debian:Buypass_Class_2_Root_CA.pem -Adding debian:TWCA_Global_Root_CA.pem -Adding debian:Actalis_Authentication_Root_CA.pem -Adding debian:GlobalSign_Root_CA_-_R3.pem +Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem +Adding debian:Trustis_FPS_Root_CA.pem +Adding debian:TrustCor_RootCert_CA-1.pem +Adding debian:QuoVadis_Root_CA_2_G3.pem +Adding debian:emSign_Root_CA_-_G1.pem Adding debian:TrustCor_ECA-1.pem -Adding debian:Amazon_Root_CA_4.pem -Adding debian:GTS_Root_R1.pem -Adding debian:EC-ACC.pem -Adding debian:Amazon_Root_CA_2.pem +Adding debian:ePKI_Root_Certification_Authority.pem +Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem +Adding debian:ACCVRAIZ1.pem +Adding debian:SSL.com_Root_Certification_Authority_RSA.pem +Adding debian:emSign_ECC_Root_CA_-_G3.pem +Adding debian:DigiCert_Trusted_Root_G4.pem +Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem -Adding debian:Trustwave_Global_Certification_Authority.pem +Adding debian:Network_Solutions_Certificate_Authority.pem +Adding debian:TWCA_Root_Certification_Authority.pem +Adding debian:GlobalSign_Root_CA.pem +Adding debian:Security_Communication_RootCA2.pem Adding debian:AC_RAIZ_FNMT-RCM.pem -Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem -Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem -Adding debian:DigiCert_Assured_ID_Root_G2.pem -Adding debian:XRamp_Global_CA_Root.pem +Adding debian:UCA_Global_G2_Root.pem +Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem -Adding debian:Network_Solutions_Certificate_Authority.pem +Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem +Adding debian:Certum_Trusted_Network_CA.pem Adding debian:certSIGN_Root_CA_G2.pem -Adding debian:Entrust_Root_Certification_Authority.pem -Adding debian:Amazon_Root_CA_1.pem -Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem -Adding debian:ePKI_Root_Certification_Authority.pem -Adding debian:SSL.com_Root_Certification_Authority_RSA.pem -Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem -Adding debian:emSign_Root_CA_-_G1.pem +Adding debian:SZAFIR_ROOT_CA2.pem +Adding debian:emSign_ECC_Root_CA_-_C3.pem +Adding debian:GTS_Root_R3.pem +Adding debian:AffirmTrust_Networking.pem Adding debian:Go_Daddy_Class_2_CA.pem -Adding debian:DigiCert_Trusted_Root_G4.pem +Adding debian:Cybertrust_Global_Root.pem +Adding debian:DigiCert_Assured_ID_Root_CA.pem +Adding debian:Starfield_Class_2_CA.pem +Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem +Adding debian:DigiCert_Assured_ID_Root_G2.pem +Adding debian:SecureTrust_CA.pem +Adding debian:GlobalSign_Root_CA_-_R3.pem +Adding debian:XRamp_Global_CA_Root.pem +Adding debian:DigiCert_Global_Root_CA.pem +Adding debian:Certigna_Root_CA.pem +Adding debian:GeoTrust_Primary_Certification_Authority_-_G2.pem +Adding debian:GTS_Root_R2.pem +Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem +Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem +Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem +Adding debian:Entrust_Root_Certification_Authority.pem +Adding debian:Izenpe.com.pem +Adding debian:certSIGN_ROOT_CA.pem +Adding debian:Trustwave_Global_Certification_Authority.pem +Adding debian:DigiCert_Assured_ID_Root_G3.pem +Adding debian:TrustCor_RootCert_CA-2.pem +Adding debian:CFCA_EV_ROOT.pem +Adding debian:Amazon_Root_CA_4.pem +Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:UCA_Extended_Validation_Root.pem +Adding debian:USERTrust_RSA_Certification_Authority.pem +Adding debian:Amazon_Root_CA_1.pem +Adding debian:Atos_TrustedRoot_2011.pem +Adding debian:GDCA_TrustAUTH_R5_ROOT.pem +Adding debian:Hongkong_Post_Root_CA_1.pem +Adding debian:QuoVadis_Root_CA.pem +Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem +Adding debian:AffirmTrust_Commercial.pem +Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem +Adding debian:Microsec_e-Szigno_Root_CA_2009.pem +Adding debian:Hongkong_Post_Root_CA_3.pem +Adding debian:CA_Disig_Root_R2.pem +Adding debian:Amazon_Root_CA_3.pem +Adding debian:DigiCert_Global_Root_G2.pem +Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem +Adding debian:QuoVadis_Root_CA_3_G3.pem +Adding debian:DST_Root_CA_X3.pem +Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:emSign_Root_CA_-_C1.pem +Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem +Adding debian:Chambers_of_Commerce_Root_-_2008.pem +Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem +Adding debian:SecureSign_RootCA11.pem +Adding debian:GlobalSign_Root_CA_-_R6.pem +Adding debian:VeriSign_Universal_Root_Certification_Authority.pem +Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem +Adding debian:DigiCert_Global_Root_G3.pem +Adding debian:QuoVadis_Root_CA_1_G3.pem +Adding debian:Comodo_AAA_Services_root.pem +Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:e-Szigno_Root_CA_2017.pem -Adding debian:E-Tugra_Certification_Authority.pem -Adding debian:Security_Communication_Root_CA.pem -Adding debian:COMODO_ECC_Certification_Authority.pem -Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem +Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem +Adding debian:TeliaSonera_Root_CA_v1.pem +Adding debian:SwissSign_Silver_CA_-_G2.pem +Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem +Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem +Adding debian:Staat_der_Nederlanden_Root_CA_-_G3.pem +Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem done. Setting up junit4 (4.13.1-2) ... Setting up default-jdk (2:1.11-72) ... @@ -1582,8 +1616,44 @@ Writing extended state information... Building tag database... -> Finished parsing the build-deps +Reading package lists... +Building dependency tree... +Reading state information... +The following additional packages will be installed: + libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl +The following NEW packages will be installed: + libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl usrmerge +0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. +Need to get 59.5 kB of archives. +After this operation, 157 kB of additional disk space will be used. +Get:1 http://deb.debian.org/debian bullseye/main i386 libnumber-compare-perl all 0.03-1.1 [6956 B] +Get:2 http://deb.debian.org/debian bullseye/main i386 libtext-glob-perl all 0.11-1 [8888 B] +Get:3 http://deb.debian.org/debian bullseye/main i386 libfile-find-rule-perl all 0.34-1 [30.6 kB] +Get:4 http://deb.debian.org/debian bullseye/main i386 usrmerge all 25 [13.0 kB] +debconf: delaying package configuration, since apt-utils is not installed +Fetched 59.5 kB in 0s (5014 kB/s) +Selecting previously unselected package libnumber-compare-perl. +(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 ... 43604 files and directories currently installed.) +Preparing to unpack .../libnumber-compare-perl_0.03-1.1_all.deb ... +Unpacking libnumber-compare-perl (0.03-1.1) ... +Selecting previously unselected package libtext-glob-perl. +Preparing to unpack .../libtext-glob-perl_0.11-1_all.deb ... +Unpacking libtext-glob-perl (0.11-1) ... +Selecting previously unselected package libfile-find-rule-perl. +Preparing to unpack .../libfile-find-rule-perl_0.34-1_all.deb ... +Unpacking libfile-find-rule-perl (0.34-1) ... +Selecting previously unselected package usrmerge. +Preparing to unpack .../archives/usrmerge_25_all.deb ... +Unpacking usrmerge (25) ... +Setting up libtext-glob-perl (0.11-1) ... +Setting up libnumber-compare-perl (0.03-1.1) ... +Setting up libfile-find-rule-perl (0.34-1) ... +Setting up usrmerge (25) ... +The system has been successfully converted. +Processing triggers for man-db (2.9.4-2) ... +Not building database; man-db/auto-update is not 'true'. I: Building the package -I: Running cd /build/beast2-mcmc-2.6.3+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b +I: Running cd /build/beast2-mcmc-2.6.3+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package beast2-mcmc dpkg-buildpackage: info: source version 2.6.3+dfsg-2 dpkg-buildpackage: info: source distribution unstable @@ -1647,37 +1717,37 @@ junit: [mkdir] Created dir: /build/beast2-mcmc-2.6.3+dfsg/build/junitreport [junit] Running test.beast.app.BeautiSubTemplateTest - [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 3.812 sec + [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.216 sec [junit] Running test.beast.app.BeautiTest - [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 20.132 sec + [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.689 sec [junit] Running test.beast.app.tools.LogCombinerTest - [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 5.51 sec + [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.555 sec [junit] Running test.beast.core.BEASTInterfaceTest - [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.338 sec + [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.103 sec [junit] Running test.beast.core.InputForAnnotatedConstructorTest - [junit] Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.092 sec + [junit] Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.398 sec [junit] Running test.beast.core.InputTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.994 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.096 sec [junit] Running test.beast.core.LoggerTest - [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.598 sec + [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.101 sec [junit] Running test.beast.core.OperatorScheduleTest - [junit] Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.169 sec + [junit] Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.119 sec [junit] Running test.beast.core.StateNodeInitialiserTest - [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 4.309 sec + [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.281 sec [junit] Running test.beast.core.parameter.BooleanParameterListTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.889 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.103 sec [junit] Running test.beast.core.parameter.IntegerParameterListTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.328 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.105 sec [junit] Running test.beast.core.parameter.ParameterTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.468 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.1 sec [junit] Running test.beast.core.parameter.RealParameterListTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.548 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.106 sec [junit] Running test.beast.core.util.SumTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.944 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.103 sec [junit] Running test.beast.evolution.alignment.FilteredAlignmentTest - [junit] Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 5.227 sec + [junit] Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.252 sec [junit] Running test.beast.evolution.alignment.UncertainAlignmentTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 3.459 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.204 sec [junit] Running test.beast.evolution.alignment.UnorderedAlignmentsTest [junit] beignet-opencl-icd: no supported GPU found, this is probably the wrong opencl-icd package for this hardware [junit] (If you have multiple ICDs installed and OpenCL works, you can ignore this message) @@ -1687,9 +1757,9 @@ [junit] Tests run: 1, Failures: 0, Errors: 1, Skipped: 0, Time elapsed: 0 sec [junit] Test test.beast.evolution.alignment.UnorderedAlignmentsTest FAILED (crashed) [junit] Running test.beast.evolution.datatype.DataTypeDeEncodeTest - [junit] Tests run: 10, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.469 sec + [junit] Tests run: 10, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.095 sec [junit] Running test.beast.evolution.datatype.IntegerDataTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.257 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.095 sec [junit] Running test.beast.evolution.likelihood.TreeLikelihoodTest [junit] beignet-opencl-icd: no supported GPU found, this is probably the wrong opencl-icd package for this hardware [junit] (If you have multiple ICDs installed and OpenCL works, you can ignore this message) @@ -1699,49 +1769,49 @@ [junit] Tests run: 1, Failures: 0, Errors: 1, Skipped: 0, Time elapsed: 0 sec [junit] Test test.beast.evolution.likelihood.TreeLikelihoodTest FAILED (crashed) [junit] Running test.beast.evolution.operator.CompoundParameterHelperTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.58 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.1 sec [junit] Running test.beast.evolution.operator.DeltaExchangeOperatorTest - [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.861 sec + [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.11 sec [junit] Running test.beast.evolution.operator.ExchangeOperatorTest - [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 95.714 sec + [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 9.49 sec [junit] Running test.beast.evolution.operator.IntRandomWalkOperatorTest - [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 96.575 sec + [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 11.461 sec [junit] Running test.beast.evolution.operator.ScaleOperatorTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.537 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.148 sec [junit] Running test.beast.evolution.operator.UniformIntegerOperatorTest - [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.931 sec + [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.105 sec [junit] Running test.beast.evolution.operator.WilsonBaldingTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 9.571 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.566 sec [junit] Running test.beast.evolution.speciation.BirthDeathGernhard08ModelTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.033 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.267 sec [junit] Running test.beast.evolution.speciation.YuleModelTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.877 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.156 sec [junit] Running test.beast.evolution.substmodel.BinaryCovarionModelTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 3.688 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.135 sec [junit] Running test.beast.evolution.substmodel.GTRTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.52 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.124 sec [junit] Running test.beast.evolution.substmodel.GeneralSubstitutionModelTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.158 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.109 sec [junit] Running test.beast.evolution.substmodel.HKYTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.764 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.105 sec [junit] Running test.beast.evolution.tree.NodeTest - [junit] Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.24 sec + [junit] Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.17 sec [junit] Running test.beast.evolution.tree.RandomTreeTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 82.306 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 10.881 sec [junit] Running test.beast.evolution.tree.TraitSetTest - [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.422 sec + [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.195 sec [junit] Running test.beast.evolution.tree.TreeAnnotatorTest - [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 3.034 sec + [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.2 sec [junit] Running test.beast.evolution.tree.TreeTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.923 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.149 sec [junit] Running test.beast.evolution.tree.TreeUtilsTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.706 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.151 sec [junit] Running test.beast.evolution.tree.coalescent.BayesianSkylineTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.419 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.152 sec [junit] Running test.beast.evolution.tree.coalescent.CoalescentTest - [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 4.502 sec + [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.264 sec [junit] Running test.beast.integration.DocumentationTest - [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 13.836 sec + [junit] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.539 sec [junit] Running test.beast.integration.ExampleJSONParsingTest [junit] beignet-opencl-icd: no supported GPU found, this is probably the wrong opencl-icd package for this hardware [junit] (If you have multiple ICDs installed and OpenCL works, you can ignore this message) @@ -1759,7 +1829,7 @@ [junit] Tests run: 1, Failures: 0, Errors: 1, Skipped: 0, Time elapsed: 0 sec [junit] Test test.beast.integration.ExampleXmlParsingTest FAILED (crashed) [junit] Running test.beast.integration.InputTypeTest - [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 8.56 sec + [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.565 sec [junit] Running test.beast.integration.ResumeTest [junit] beignet-opencl-icd: no supported GPU found, this is probably the wrong opencl-icd package for this hardware [junit] (If you have multiple ICDs installed and OpenCL works, you can ignore this message) @@ -1769,27 +1839,27 @@ [junit] Tests run: 1, Failures: 0, Errors: 1, Skipped: 0, Time elapsed: 0 sec [junit] Test test.beast.integration.ResumeTest FAILED (crashed) [junit] Running test.beast.integration.XMLElementNameTest - [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 3.795 sec + [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.55 sec [junit] Running test.beast.integration.XMLProducerTest - [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 15.995 sec + [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.678 sec [junit] Running test.beast.math.distributions.GammaTest - [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.222 sec + [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.09 sec [junit] Running test.beast.math.distributions.InvGammaTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.648 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.104 sec [junit] Running test.beast.math.distributions.LaplaceDistributionTest - [junit] Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 14.343 sec + [junit] Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.482 sec [junit] Running test.beast.math.distributions.LogNormalDistributionModelTest - [junit] Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 25.101 sec + [junit] Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.156 sec [junit] Running test.beast.math.distributions.MRCAPriorTest - [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.147 sec + [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.287 sec [junit] Running test.beast.math.distributions.MeanOfParametricDistributionTest - [junit] Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 5.874 sec + [junit] Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.341 sec [junit] Running test.beast.math.distributions.NormalDistributionTest - [junit] Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 9.628 sec + [junit] Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.49 sec [junit] Running test.beast.statistic.RPNCalculatorTest - [junit] Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.797 sec + [junit] Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.407 sec [junit] Running test.beast.util.ClusterTreeTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 3.818 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.258 sec [junit] Running test.beast.util.JSONTest [junit] beignet-opencl-icd: no supported GPU found, this is probably the wrong opencl-icd package for this hardware [junit] (If you have multiple ICDs installed and OpenCL works, you can ignore this message) @@ -1799,15 +1869,15 @@ [junit] Tests run: 1, Failures: 0, Errors: 1, Skipped: 0, Time elapsed: 0 sec [junit] Test test.beast.util.JSONTest FAILED (crashed) [junit] Running test.beast.util.NexusParserTest - [junit] Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 8.243 sec + [junit] Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.66 sec [junit] Running test.beast.util.RandomizerTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.821 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.444 sec [junit] Running test.beast.util.TreeParserTest - [junit] Tests run: 11, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.365 sec + [junit] Tests run: 11, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.169 sec [junit] Running test.beast.util.XMLParserTest - [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 11.537 sec + [junit] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.326 sec [junit] Running test.beast.util.XMLTest - [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 9.335 sec + [junit] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.586 sec [echo] JUnit test finished. dist_all_BEAST: @@ -1825,7 +1895,7 @@ build_jar_all_BEAST: BUILD SUCCESSFUL -Total time: 15 minutes 7 seconds +Total time: 1 minute 17 seconds mv debian/fest_swing_tests src/test/beast/app/beauti make[1]: Leaving directory '/build/beast2-mcmc-2.6.3+dfsg' dh_auto_test @@ -1854,25 +1924,27 @@ dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package beast2-mcmc: substitution variable ${shlibs:Depends} used, but is not defined -dpkg-gencontrol: warning: Depends field of package beast2-mcmc-examples: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: Depends field of package beast2-mcmc-doc: substitution variable ${shlibs:Depends} used, but is not defined +dpkg-gencontrol: warning: Depends field of package beast2-mcmc-examples: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums dh_builddeb +dpkg-deb: building package 'beast2-mcmc' in '../beast2-mcmc_2.6.3+dfsg-2_all.deb'. dpkg-deb: building package 'beast2-mcmc-examples' in '../beast2-mcmc-examples_2.6.3+dfsg-2_all.deb'. dpkg-deb: building package 'beast2-mcmc-doc' in '../beast2-mcmc-doc_2.6.3+dfsg-2_all.deb'. -dpkg-deb: building package 'beast2-mcmc' in '../beast2-mcmc_2.6.3+dfsg-2_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../beast2-mcmc_2.6.3+dfsg-2_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration +I: user script /srv/workspace/pbuilder/37802/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/37802/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/29697 and its subdirectories -I: Current time: Mon May 24 10:23:50 -12 2021 -I: pbuilder-time-stamp: 1621895030 +I: removing directory /srv/workspace/pbuilder/37802 and its subdirectories +I: Current time: Mon Jun 27 18:49:53 +14 2022 +I: pbuilder-time-stamp: 1656305393