Diff of the two buildlogs: -- --- b1/build.log 2021-08-14 05:31:51.530738181 +0000 +++ b2/build.log 2021-08-14 05:35:19.694936124 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Sep 15 23:52:40 -12 2022 -I: pbuilder-time-stamp: 1663329160 +I: Current time: Sat Aug 14 19:31:56 +14 2021 +I: pbuilder-time-stamp: 1628919116 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration @@ -16,8 +16,8 @@ I: copying [./python-pbcore_1.7.1+git20200430.a127b1e+dfsg-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' -gpgv: keyblock resource '/tmp/dpkg-verify-sig.XBQDW7Ni/trustedkeys.kbx': General error -gpgv: Signature made Tue May 5 03:55:17 2020 -12 +gpgv: keyblock resource '/tmp/dpkg-verify-sig.iUYD2a_T/trustedkeys.kbx': General error +gpgv: Signature made Wed May 6 05:55:17 2020 +14 gpgv: using RSA key 84C1977A89E7EFED3E5CA62E2FD8BEDAC020EED1 gpgv: issuer "moeller@debian.org" gpgv: Can't check signature: No public key @@ -30,135 +30,169 @@ dpkg-source: info: applying enable-build-time-testing.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/31857/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/27337/tmp/hooks/D01_modify_environment starting +debug: Running on codethink10-arm64. +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/27337/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/27337/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='arm64' - DEBIAN_FRONTEND='noninteractive' + 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]="aarch64-unknown-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=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=8' - DISTRIBUTION='' - HOME='/var/lib/jenkins' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION= + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/var/lib/jenkins + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - 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='31857' - PS1='# ' - PS2='> ' + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-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=27337 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.pDS8ki1TyG/pbuilderrc_JPnR --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.pDS8ki1TyG/b1 --logfile b1/build.log python-pbcore_1.7.1+git20200430.a127b1e+dfsg-1.dsc' - SUDO_GID='117' - SUDO_UID='110' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - USERNAME='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.16:3128' + 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.pDS8ki1TyG/pbuilderrc_3IKX --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.pDS8ki1TyG/b2 --logfile b2/build.log --extrapackages usrmerge python-pbcore_1.7.1+git20200430.a127b1e+dfsg-1.dsc' + SUDO_GID=117 + SUDO_UID=110 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + USERNAME=root + _='I: set' + http_proxy=http://192.168.101.16:3128 I: uname -a - Linux codethink11-arm64 4.15.0-153-generic #160-Ubuntu SMP Thu Jul 29 07:06:07 UTC 2021 aarch64 GNU/Linux + Linux i-capture-the-hostname 4.15.0-153-generic #160-Ubuntu SMP Thu Jul 29 07:06:07 UTC 2021 aarch64 GNU/Linux I: ls -l /bin total 5252 - -rwxr-xr-x 1 root root 1282512 Aug 4 2021 bash - -rwxr-xr-x 3 root root 34808 Jul 20 2020 bunzip2 - -rwxr-xr-x 3 root root 34808 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 34808 Jul 20 2020 bzip2 - -rwxr-xr-x 1 root root 14264 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 39832 Sep 22 2020 cat - -rwxr-xr-x 1 root root 64512 Sep 22 2020 chgrp - -rwxr-xr-x 1 root root 60368 Sep 22 2020 chmod - -rwxr-xr-x 1 root root 64528 Sep 22 2020 chown - -rwxr-xr-x 1 root root 138896 Sep 22 2020 cp - -rwxr-xr-x 1 root root 129544 Dec 10 2020 dash - -rwxr-xr-x 1 root root 101384 Sep 22 2020 date - -rwxr-xr-x 1 root root 80984 Sep 22 2020 dd - -rwxr-xr-x 1 root root 89824 Sep 22 2020 df - -rwxr-xr-x 1 root root 143088 Sep 22 2020 dir - -rwxr-xr-x 1 root root 76152 Jul 28 2021 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 35632 Sep 22 2020 echo - -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep - -rwxr-xr-x 1 root root 31512 Sep 22 2020 false - -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep - -rwxr-xr-x 1 root root 64856 Jul 28 2021 findmnt - -rwsr-xr-x 1 root root 34824 Feb 26 2021 fusermount - -rwxr-xr-x 1 root root 178400 Nov 9 2020 grep - -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip - -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe - -rwxr-xr-x 1 root root 93744 Mar 2 2021 gzip - -rwxr-xr-x 1 root root 18440 Nov 6 2019 hostname - -rwxr-xr-x 1 root root 68720 Sep 22 2020 ln - -rwxr-xr-x 1 root root 52720 Feb 7 2020 login - -rwxr-xr-x 1 root root 143088 Sep 22 2020 ls - -rwxr-xr-x 1 root root 161960 Jul 28 2021 lsblk - -rwxr-xr-x 1 root root 85200 Sep 22 2020 mkdir - -rwxr-xr-x 1 root root 68744 Sep 22 2020 mknod - -rwxr-xr-x 1 root root 43976 Sep 22 2020 mktemp - -rwxr-xr-x 1 root root 51368 Jul 28 2021 more - -rwsr-xr-x 1 root root 51360 Jul 28 2021 mount - -rwxr-xr-x 1 root root 14496 Jul 28 2021 mountpoint - -rwxr-xr-x 1 root root 134808 Sep 22 2020 mv - lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 18 2021 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 35720 Sep 22 2020 pwd - lrwxrwxrwx 1 root root 4 Aug 4 2021 rbash -> bash - -rwxr-xr-x 1 root root 43872 Sep 22 2020 readlink - -rwxr-xr-x 1 root root 68592 Sep 22 2020 rm - -rwxr-xr-x 1 root root 43880 Sep 22 2020 rmdir - -rwxr-xr-x 1 root root 19208 Sep 27 2020 run-parts - -rwxr-xr-x 1 root root 114016 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Sep 14 03:47 sh -> dash - -rwxr-xr-x 1 root root 35656 Sep 22 2020 sleep - -rwxr-xr-x 1 root root 72640 Sep 22 2020 stty - -rwsr-xr-x 1 root root 67776 Jul 28 2021 su - -rwxr-xr-x 1 root root 35672 Sep 22 2020 sync - -rwxr-xr-x 1 root root 535768 Feb 16 2021 tar - -rwxr-xr-x 1 root root 10568 Sep 27 2020 tempfile - -rwxr-xr-x 1 root root 89120 Sep 22 2020 touch - -rwxr-xr-x 1 root root 31512 Sep 22 2020 true - -rwxr-xr-x 1 root root 14264 Feb 26 2021 ulockmgr_server - -rwsr-xr-x 1 root root 30880 Jul 28 2021 umount - -rwxr-xr-x 1 root root 35640 Sep 22 2020 uname - -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress - -rwxr-xr-x 1 root root 143088 Sep 22 2020 vdir - -rwxr-xr-x 1 root root 59584 Jul 28 2021 wdctl - lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat - -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp - -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff - -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep - -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep - -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce - -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep - -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless - -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore - -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew -I: user script /srv/workspace/pbuilder/31857/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1282512 Aug 5 10:25 bash + -rwxr-xr-x 3 root root 34808 Jul 21 2020 bunzip2 + -rwxr-xr-x 3 root root 34808 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 34808 Jul 21 2020 bzip2 + -rwxr-xr-x 1 root root 14264 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 39832 Sep 23 2020 cat + -rwxr-xr-x 1 root root 64512 Sep 23 2020 chgrp + -rwxr-xr-x 1 root root 60368 Sep 23 2020 chmod + -rwxr-xr-x 1 root root 64528 Sep 23 2020 chown + -rwxr-xr-x 1 root root 138896 Sep 23 2020 cp + -rwxr-xr-x 1 root root 129544 Dec 11 2020 dash + -rwxr-xr-x 1 root root 101384 Sep 23 2020 date + -rwxr-xr-x 1 root root 80984 Sep 23 2020 dd + -rwxr-xr-x 1 root root 89824 Sep 23 2020 df + -rwxr-xr-x 1 root root 143088 Sep 23 2020 dir + -rwxr-xr-x 1 root root 76152 Jul 29 09:09 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 35632 Sep 23 2020 echo + -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep + -rwxr-xr-x 1 root root 31512 Sep 23 2020 false + -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep + -rwxr-xr-x 1 root root 64856 Jul 29 09:09 findmnt + -rwsr-xr-x 1 root root 34824 Feb 27 06:12 fusermount + -rwxr-xr-x 1 root root 178400 Nov 10 2020 grep + -rwxr-xr-x 2 root root 2346 Mar 3 13:30 gunzip + -rwxr-xr-x 1 root root 6376 Mar 3 13:30 gzexe + -rwxr-xr-x 1 root root 93744 Mar 3 13:30 gzip + -rwxr-xr-x 1 root root 18440 Nov 8 2019 hostname + -rwxr-xr-x 1 root root 68720 Sep 23 2020 ln + -rwxr-xr-x 1 root root 52720 Feb 8 2020 login + -rwxr-xr-x 1 root root 143088 Sep 23 2020 ls + -rwxr-xr-x 1 root root 161960 Jul 29 09:09 lsblk + -rwxr-xr-x 1 root root 85200 Sep 23 2020 mkdir + -rwxr-xr-x 1 root root 68744 Sep 23 2020 mknod + -rwxr-xr-x 1 root root 43976 Sep 23 2020 mktemp + -rwxr-xr-x 1 root root 51368 Jul 29 09:09 more + -rwsr-xr-x 1 root root 51360 Jul 29 09:09 mount + -rwxr-xr-x 1 root root 14496 Jul 29 09:09 mountpoint + -rwxr-xr-x 1 root root 134808 Sep 23 2020 mv + lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 19 05:38 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 35720 Sep 23 2020 pwd + lrwxrwxrwx 1 root root 4 Aug 5 10:25 rbash -> bash + -rwxr-xr-x 1 root root 43872 Sep 23 2020 readlink + -rwxr-xr-x 1 root root 68592 Sep 23 2020 rm + -rwxr-xr-x 1 root root 43880 Sep 23 2020 rmdir + -rwxr-xr-x 1 root root 19208 Sep 28 2020 run-parts + -rwxr-xr-x 1 root root 114016 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Aug 14 19:32 sh -> bash + lrwxrwxrwx 1 root root 4 Aug 13 23:25 sh.distrib -> dash + -rwxr-xr-x 1 root root 35656 Sep 23 2020 sleep + -rwxr-xr-x 1 root root 72640 Sep 23 2020 stty + -rwsr-xr-x 1 root root 67776 Jul 29 09:09 su + -rwxr-xr-x 1 root root 35672 Sep 23 2020 sync + -rwxr-xr-x 1 root root 535768 Feb 17 23:55 tar + -rwxr-xr-x 1 root root 10568 Sep 28 2020 tempfile + -rwxr-xr-x 1 root root 89120 Sep 23 2020 touch + -rwxr-xr-x 1 root root 31512 Sep 23 2020 true + -rwxr-xr-x 1 root root 14264 Feb 27 06:12 ulockmgr_server + -rwsr-xr-x 1 root root 30880 Jul 29 09:09 umount + -rwxr-xr-x 1 root root 35640 Sep 23 2020 uname + -rwxr-xr-x 2 root root 2346 Mar 3 13:30 uncompress + -rwxr-xr-x 1 root root 143088 Sep 23 2020 vdir + -rwxr-xr-x 1 root root 59584 Jul 29 09:09 wdctl + lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Mar 3 13:30 zcat + -rwxr-xr-x 1 root root 1678 Mar 3 13:30 zcmp + -rwxr-xr-x 1 root root 5880 Mar 3 13:30 zdiff + -rwxr-xr-x 1 root root 29 Mar 3 13:30 zegrep + -rwxr-xr-x 1 root root 29 Mar 3 13:30 zfgrep + -rwxr-xr-x 1 root root 2081 Mar 3 13:30 zforce + -rwxr-xr-x 1 root root 7585 Mar 3 13:30 zgrep + -rwxr-xr-x 1 root root 2206 Mar 3 13:30 zless + -rwxr-xr-x 1 root root 1842 Mar 3 13:30 zmore + -rwxr-xr-x 1 root root 4553 Mar 3 13:30 znew +I: user script /srv/workspace/pbuilder/27337/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -382,7 +416,7 @@ Get: 154 http://deb.debian.org/debian bullseye/main arm64 sphinx-common all 3.4.3-2 [578 kB] Get: 155 http://deb.debian.org/debian bullseye/main arm64 python3-sphinx all 3.4.3-2 [545 kB] Get: 156 http://deb.debian.org/debian bullseye/main arm64 python3-uritools all 3.0.0-2 [28.0 kB] -Fetched 50.8 MB in 2s (29.0 MB/s) +Fetched 50.8 MB in 1s (39.4 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 ... 19646 files and directories currently installed.) @@ -1048,8 +1082,45 @@ 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 arm64 libnumber-compare-perl all 0.03-1.1 [6956 B] +Get:2 http://deb.debian.org/debian bullseye/main arm64 libtext-glob-perl all 0.11-1 [8888 B] +Get:3 http://deb.debian.org/debian bullseye/main arm64 libfile-find-rule-perl all 0.34-1 [30.6 kB] +Get:4 http://deb.debian.org/debian bullseye/main arm64 usrmerge all 25 [13.0 kB] +debconf: delaying package configuration, since apt-utils is not installed +Fetched 59.5 kB in 0s (1341 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 ... 28718 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/python-pbcore-1.7.1+git20200430.a127b1e+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../python-pbcore_1.7.1+git20200430.a127b1e+dfsg-1_source.changes +hostname: Temporary failure in name resolution +I: Running cd /build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg/ && 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 > ../python-pbcore_1.7.1+git20200430.a127b1e+dfsg-1_source.changes dpkg-buildpackage: info: source package python-pbcore dpkg-buildpackage: info: source version 1.7.1+git20200430.a127b1e+dfsg-1 dpkg-buildpackage: info: source distribution unstable @@ -1061,9 +1132,9 @@ debian/rules:27: warning: ignoring old recipe for target 'override_dh_auto_clean' LC_ALL=C.UTF-8 dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean -make[1]: Entering directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' -debian/rules:54: warning: overriding recipe for target 'override_dh_auto_clean' -debian/rules:27: warning: ignoring old recipe for target 'override_dh_auto_clean' +make[1]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt binnengegaan +debian/rules:54: Waarschuwing: er wordt voorbijgegaan aan recept voor doel 'override_dh_auto_clean' +debian/rules:27: Waarschuwing: oud recept voor doel 'override_dh_auto_clean' wordt genegeerd rm -f doc/pbcore.data.datasets.rst doc/pbcore.io.align.rst doc/pbcore.io.dataset.pyxb.rst rm -fr coverage.xml .eggs/README.txt .pytest_cache rm -rf .pybuild @@ -1071,7 +1142,7 @@ find . -name __pycache__ | xargs -r rm -rf rm -f .coverage nosetests.xml rm -rf pbcore.egg-info -make[1]: Leaving directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' +make[1]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt verlaten dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary @@ -1086,9 +1157,9 @@ warnings.warn(msg) running config debian/rules override_dh_auto_build -make[1]: Entering directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' -debian/rules:54: warning: overriding recipe for target 'override_dh_auto_clean' -debian/rules:27: warning: ignoring old recipe for target 'override_dh_auto_clean' +make[1]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt binnengegaan +debian/rules:54: Waarschuwing: er wordt voorbijgegaan aan recept voor doel 'override_dh_auto_clean' +debian/rules:27: Waarschuwing: oud recept voor doel 'override_dh_auto_clean' wordt genegeerd dh_auto_build I: pybuild base:232: /usr/bin/python3 setup.py build /usr/lib/python3.9/distutils/dist.py:274: UserWarning: Unknown distribution option: 'test_requires' @@ -1236,7 +1307,7 @@ copying pbcore/data/datasets/subread.dataset.xml -> /build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg/.pybuild/cpython3_3.9_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/subreadSetWithStats.xml -> /build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg/.pybuild/cpython3_3.9_pbcore/build/pbcore/data/datasets /usr/bin/make doc -make[2]: Entering directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' +make[2]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt binnengegaan sphinx-apidoc -o doc/ pbcore/ && cd doc/ && make html File doc/pbcore.rst already exists, skipping. File doc/pbcore.chemistry.rst already exists, skipping. @@ -1249,7 +1320,7 @@ File doc/pbcore.model.rst already exists, skipping. File doc/pbcore.util.rst already exists, skipping. File doc/modules.rst already exists, skipping. -make[3]: Entering directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg/doc' +make[3]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg/doc' wordt binnengegaan sphinx-apidoc -o . -d 4 ../pbcore/ File ./pbcore.rst already exists, skipping. File ./pbcore.chemistry.rst already exists, skipping. @@ -1267,7 +1338,7 @@ making output directory... done loading intersphinx inventory from http://docs.python.org/objects.inv... WARNING: failed to reach any of the inventories with the following issues: -intersphinx inventory 'http://docs.python.org/objects.inv' not fetchable due to : HTTPConnectionPool(host='docs.python.org', port=80): Max retries exceeded with url: /objects.inv (Caused by NewConnectionError(': Failed to establish a new connection: [Errno -3] Temporary failure in name resolution')) +intersphinx inventory 'http://docs.python.org/objects.inv' not fetchable due to : HTTPConnectionPool(host='docs.python.org', port=80): Max retries exceeded with url: /objects.inv (Caused by NewConnectionError(': Failed to establish a new connection: [Errno -3] Tijdelijk probleem in naamsherleiding')) building [mo]: targets for 0 po files that are out of date building [html]: targets for 12 source files that are out of date updating environment: [new config] 12 added, 0 changed, 0 removed @@ -1378,13 +1449,13 @@ The HTML pages are in _build/html. Build finished. The HTML pages are in _build/html. -make[3]: Leaving directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg/doc' -make[2]: Leaving directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' -make[1]: Leaving directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' +make[3]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg/doc' wordt verlaten +make[2]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt verlaten +make[1]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt verlaten debian/rules override_dh_auto_test -make[1]: Entering directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' -debian/rules:54: warning: overriding recipe for target 'override_dh_auto_clean' -debian/rules:27: warning: ignoring old recipe for target 'override_dh_auto_clean' +make[1]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt binnengegaan +debian/rules:54: Waarschuwing: er wordt voorbijgegaan aan recept voor doel 'override_dh_auto_clean' +debian/rules:27: Waarschuwing: oud recept voor doel 'override_dh_auto_clean' wordt genegeerd # we need to exclude tests requiring pbtestdata which is not packaged mkdir -p /tmp/tests_avoid mv `grep -l pbtestdata tests/*.py` /tmp/tests_avoid @@ -1423,252 +1494,252 @@ [gw5] linux Python 3.9.2 cwd: /build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg [gw6] linux Python 3.9.2 cwd: /build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg [gw7] linux Python 3.9.2 cwd: /build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg + [gw1] Python 3.9.2 (default, Feb 28 2021, 17:03:44) -- [GCC 10.2.1 20210110] [gw0] Python 3.9.2 (default, Feb 28 2021, 17:03:44) -- [GCC 10.2.1 20210110] [gw2] Python 3.9.2 (default, Feb 28 2021, 17:03:44) -- [GCC 10.2.1 20210110] - [gw1] Python 3.9.2 (default, Feb 28 2021, 17:03:44) -- [GCC 10.2.1 20210110] [gw4] Python 3.9.2 (default, Feb 28 2021, 17:03:44) -- [GCC 10.2.1 20210110] [gw3] Python 3.9.2 (default, Feb 28 2021, 17:03:44) -- [GCC 10.2.1 20210110] + [gw6] Python 3.9.2 (default, Feb 28 2021, 17:03:44) -- [GCC 10.2.1 20210110] [gw5] Python 3.9.2 (default, Feb 28 2021, 17:03:44) -- [GCC 10.2.1 20210110] [gw7] Python 3.9.2 (default, Feb 28 2021, 17:03:44) -- [GCC 10.2.1 20210110] - [gw6] Python 3.9.2 (default, Feb 28 2021, 17:03:44) -- [GCC 10.2.1 20210110] gw0 [140] / gw1 [140] / gw2 [140] / gw3 [140] / gw4 [140] / gw5 [140] / gw6 [140] / gw7 [140] scheduling tests via LoadScopeScheduling -tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement -tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations -tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support -tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range -tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations -tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations -[gw5] [ 0%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support -tests/test_dataset_run_split.py::test -[gw0] [ 1%] SKIPPED tests/test_dataset_run_split.py::test -[gw3] [ 2%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations -[gw2] [ 2%] PASSED tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement -[gw7] [ 3%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range -tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__init__ -[gw7] [ 4%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__init__ -tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__str__ -[gw7] [ 5%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__str__ -[gw6] [ 5%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties +tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties +[gw7] [ 0%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties +tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations +tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_sample_names -[gw6] [ 6%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_sample_names -tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta -[gw6] [ 7%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta -tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable -[gw3] [ 7%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable -tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping -[gw2] [ 8%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping -tests/test_pbcore_io_FastqIO.py::TestQvConversion::testAsciiFromQvs -tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties -[gw4] [ 9%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation +tests/test_dataset_run_split.py::test +[gw1] [ 1%] SKIPPED tests/test_dataset_run_split.py::test +[gw0] [ 2%] PASSED tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement +tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range +[gw5] [ 2%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range +tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support +[gw6] [ 3%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support tests/test_pbcore_io_BlasrIO.py::test_m4 -[gw5] [ 10%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m4 +[gw6] [ 4%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m4 +tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations +[gw3] [ 5%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations +tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable +[gw3] [ 5%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable +[gw7] [ 6%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_sample_names +tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta +tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__init__ +[gw5] [ 7%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__init__ tests/test_pbcore_io_BlasrIO.py::test_m5 -[gw5] [ 10%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m5 +[gw6] [ 7%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m5 tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testIteration -[gw5] [ 11%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testIteration -tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_fromString -[gw7] [ 12%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_fromString -tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement1 -[gw4] [ 12%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName -[gw4] [ 13%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName -[gw2] [ 14%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testAsciiFromQvs -[gw7] [ 15%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement1 -tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2 -[gw7] [ 15%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2 -[gw1] [ 16%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations +[gw7] [ 8%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta +[gw2] [ 9%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testStrandOrientation -[gw1] [ 17%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testStrandOrientation -[gw0] [ 17%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties -tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1 -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead +[gw2] [ 10%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testStrandOrientation tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadName +[gw6] [ 10%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testIteration tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByName -[gw5] [ 18%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByName +[gw6] [ 11%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByName tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessById -[gw5] [ 19%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessById +tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam +[gw3] [ 12%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam +tests/test_pbcore_io_FastqIO.py::TestQvConversion::testAsciiFromQvs +[gw3] [ 12%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testAsciiFromQvs +[gw2] [ 13%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadName +tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedRead +[gw2] [ 14%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedRead +[gw6] [ 15%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessById tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByPosition -[gw4] [ 20%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead -[gw0] [ 20%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1 +tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties +[gw1] [ 15%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties +tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1 +[gw1] [ 16%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1 +tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedRead +[gw2] [ 17%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedRead +tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__str__ +[gw5] [ 17%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__str__ +tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_fromString +[gw5] [ 18%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_fromString +tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement1 +[gw5] [ 19%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement1 +tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2 +[gw5] [ 20%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2 tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_len -[gw7] [ 21%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_len +[gw5] [ 20%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_len tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_eq -[gw4] [ 22%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead -[gw1] [ 22%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadName -[gw5] [ 23%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByPosition -[gw7] [ 24%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_eq -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedReference +[gw5] [ 21%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_eq +[gw6] [ 22%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByPosition tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testSlice -tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedRead -[gw4] [ 25%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedReference -[gw5] [ 25%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testSlice +tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta +[gw4] [ 22%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation +[gw4] [ 23%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName +[gw4] [ 24%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead +[gw4] [ 25%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead +[gw4] [ 25%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedReference +[gw6] [ 26%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testSlice tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta -[gw1] [ 26%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedRead -tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedRead -[gw1] [ 27%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedRead -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedReference -[gw4] [ 27%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedReference -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testDeletionQV +tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii +[gw3] [ 27%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii +tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1 +[gw3] [ 27%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1 +tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2 +tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2 +[gw1] [ 28%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2 +tests/test_pbcore_io_FofnIO.py::test_simple tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedReference -[gw1] [ 28%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedReference +[gw2] [ 29%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedReference tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedReference -[gw4] [ 29%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testDeletionQV -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testTranscript -[gw4] [ 30%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testTranscript -[gw1] [ 30%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedReference +[gw2] [ 30%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedReference tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testDeletionQV -tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta -tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam -[gw3] [ 31%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments -[gw1] [ 32%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testDeletionQV +[gw2] [ 30%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testDeletionQV tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testTranscript -tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii -[gw2] [ 32%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii -tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1 -[gw2] [ 33%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1 -tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2 -[gw4] [ 34%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments -[gw1] [ 35%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testTranscript -tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testClippedAlignments -tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1 -[gw3] [ 35%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1 -[gw5] [ 36%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta -[gw1] [ 37%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testClippedAlignments -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange -[gw6] [ 37%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta -[gw2] [ 38%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2 +[gw2] [ 31%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testTranscript +[gw7] [ 32%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta +[gw4] [ 32%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedReference +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedReference +[gw4] [ 33%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedReference +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testDeletionQV +[gw3] [ 34%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2 tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__init__ -[gw6] [ 39%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__init__ +[gw7] [ 35%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__init__ tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__str__ -tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange -[gw6] [ 40%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__str__ +[gw7] [ 35%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__str__ tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_fromString -[gw6] [ 40%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_fromString +tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testClippedAlignments +[gw2] [ 36%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testClippedAlignments +tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping +[gw0] [ 37%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping +tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1 +[gw0] [ 37%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1 +[gw7] [ 38%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_fromString +[gw1] [ 39%] PASSED tests/test_pbcore_io_FofnIO.py::test_simple +tests/test_pbcore_io_FofnIO.py::test_empty_lines +[gw1] [ 40%] PASSED tests/test_pbcore_io_FofnIO.py::test_empty_lines +tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal +[gw5] [ 40%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal +[gw4] [ 41%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testDeletionQV +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testTranscript +[gw4] [ 42%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testTranscript +[gw6] [ 42%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement1 -[gw6] [ 41%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement1 +[gw7] [ 43%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement1 +tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments +[gw4] [ 44%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments +tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str +[gw5] [ 45%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str +tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification +[gw5] [ 45%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement2 -[gw6] [ 42%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement2 +[gw7] [ 46%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement2 +tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString +[gw5] [ 47%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_len -[gw6] [ 42%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_len +[gw7] [ 47%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_len tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_eq -[gw6] [ 43%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_eq -tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2 -tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal -[gw7] [ 44%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal -[gw0] [ 45%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2 -tests/test_pbcore_io_FofnIO.py::test_simple -[gw0] [ 45%] PASSED tests/test_pbcore_io_FofnIO.py::test_simple -tests/test_pbcore_io_FofnIO.py::test_empty_lines -[gw0] [ 46%] PASSED tests/test_pbcore_io_FofnIO.py::test_empty_lines -tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str -[gw7] [ 47%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str -tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification -[gw7] [ 47%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange +[gw7] [ 48%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_eq tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_readWeirdFastaIndex -tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString -[gw7] [ 48%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString -tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2 -[gw5] [ 49%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_readWeirdFastaIndex +[gw6] [ 49%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_readWeirdFastaIndex tests/test_pbcore_io_GffIO.py::TestGffReader::test_headers -[gw5] [ 50%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test_headers -[gw3] [ 50%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2 +[gw6] [ 50%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test_headers +tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3 +[gw3] [ 50%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3 tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeHeader [gw3] [ 51%] PASSED tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeHeader -tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3 -[gw2] [ 52%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3 +tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2 +[gw0] [ 52%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2 tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs -[gw2] [ 52%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs -tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs_sorted -[gw2] [ 53%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs_sorted -tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal -tests/test_pbcore_io_FofnIO.py::test_absolutifying -tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff -[gw2] [ 54%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff -[gw6] [ 55%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal -tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted -[gw6] [ 55%] PASSED tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted tests/test_pbcore_io_GffIO.py::TestGff3Record::test_get -[gw0] [ 56%] PASSED tests/test_pbcore_io_FofnIO.py::test_absolutifying +[gw5] [ 52%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_get tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testInvalidOperations -[gw7] [ 57%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_get +[gw5] [ 53%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testInvalidOperations +tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal +[gw7] [ 54%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal tests/test_pbcore_util.py::TestStatistics::test_accuracy_as_phred_qv -tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord -[gw3] [ 57%] PASSED tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord -[gw7] [ 58%] PASSED tests/test_pbcore_util.py::TestStatistics::test_accuracy_as_phred_qv -[gw0] [ 59%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testInvalidOperations +[gw7] [ 55%] PASSED tests/test_pbcore_util.py::TestStatistics::test_accuracy_as_phred_qv +[gw0] [ 55%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs +tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs_sorted +[gw0] [ 56%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs_sorted +tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff +tests/test_pbcore_io_FofnIO.py::test_absolutifying +[gw1] [ 57%] PASSED tests/test_pbcore_io_FofnIO.py::test_absolutifying +tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted +[gw1] [ 57%] PASSED tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted tests/test_pbcore_io_GffIO.py::TestGffReader::test__iter__ -tests/test_pbdataset_split.py::TestDataSetSplit::test_split -[gw5] [ 60%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test__iter__ +[gw6] [ 58%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test__iter__ tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse -[gw5] [ 60%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse -tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file +[gw6] [ 59%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement -[gw2] [ 61%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file -tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid -tests/test_pbcore_io_lossless_bam.py::TestCase::test_1 -[gw6] [ 62%] SKIPPED tests/test_pbcore_io_lossless_bam.py::TestCase::test_1 -tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency -tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy -tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd -[gw5] [ 62%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement +[gw6] [ 60%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverseComplement -[gw5] [ 63%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverseComplement -[gw0] [ 64%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd -[gw7] [ 65%] PASSED tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy +[gw6] [ 60%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverseComplement tests/test_pbcore_util_sequences.py::TestReverseComplement::test_iupac -[gw5] [ 65%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_iupac +[gw0] [ 61%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff +[gw6] [ 62%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_iupac tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement_error -[gw5] [ 66%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement_error +tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord +[gw3] [ 62%] PASSED tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord +tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd +tests/test_pbdataset_split.py::TestDataSetSplit::test_split +[gw6] [ 63%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement_error +tests/test_pbcore_io_lossless_bam.py::TestCase::test_1 tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse_complement_error -[gw5] [ 67%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse_complement_error -[gw6] [ 67%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency +[gw6] [ 64%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse_complement_error +tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file +[gw0] [ 65%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file +[gw5] [ 65%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd +tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid +tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy +[gw7] [ 66%] PASSED tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy +tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency +[gw1] [ 67%] SKIPPED tests/test_pbcore_io_lossless_bam.py::TestCase::test_1 +[gw7] [ 67%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming -[gw6] [ 68%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming +[gw7] [ 68%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming_entire -[gw6] [ 69%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming_entire +[gw7] [ 69%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming_entire tests/test_pbindex.py::TestPbIndex::test_pbindex_with_zmw_index -[gw1] [ 70%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange -[gw6] [ 70%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_with_zmw_index -[gw4] [ 71%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadGroupTable +[gw7] [ 70%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_with_zmw_index +[gw2] [ 70%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadGroupTable -[gw1] [ 72%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadGroupTable -[gw4] [ 72%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadGroupTable -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testSequencingChemistry -[gw4] [ 73%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testSequencingChemistry -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testMapQV +[gw2] [ 71%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadGroupTable tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSequencingChemistry -[gw1] [ 74%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSequencingChemistry +[gw5] [ 72%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid +tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype +[gw2] [ 72%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSequencingChemistry tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSpecVersion -[gw1] [ 75%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSpecVersion +[gw2] [ 73%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSpecVersion +[gw5] [ 74%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype +tests/test_pbdataset_utils.py::TestDataSetUtils::test_dsIdToSuffix +[gw5] [ 75%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_dsIdToSuffix +tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges +[gw5] [ 75%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadScore -[gw1] [ 75%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadScore -[gw4] [ 76%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testMapQV -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers +[gw2] [ 76%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadScore tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_sample_name_default -[gw1] [ 77%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_sample_name_default +[gw2] [ 77%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_sample_name_default tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_library_name_default -[gw1] [ 77%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_library_name_default -[gw2] [ 78%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid -tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype -[gw4] [ 79%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers +[gw2] [ 77%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_library_name_default +[gw3] [ 78%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split +tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws +[gw4] [ 79%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadGroupTable +[gw4] [ 80%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadGroupTable +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testSequencingChemistry +[gw4] [ 80%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testSequencingChemistry +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testMapQV +[gw4] [ 81%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testMapQV +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers +[gw4] [ 82%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testErrorCounts -[gw4] [ 80%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testErrorCounts +[gw4] [ 82%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testErrorCounts tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName -[gw2] [ 80%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype -tests/test_pbdataset_utils.py::TestDataSetUtils::test_dsIdToSuffix -[gw2] [ 81%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_dsIdToSuffix -[gw3] [ 82%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split -tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges -tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws -[gw2] [ 82%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges [gw4] [ 83%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_empty_bam [gw4] [ 84%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_empty_bam @@ -1747,27 +1818,27 @@ Coverage XML written to file coverage.xml ============================= slowest 20 durations ============================= -0.90s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks -0.69s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split -0.56s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize -0.51s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange -0.49s call tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange -0.38s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split -0.36s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws -0.32s call tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split -0.32s call tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid -0.18s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed -0.17s call tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency -0.10s setup tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations -0.09s call tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows -0.09s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity -0.08s setup tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations -0.08s call tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta -0.07s call tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name -0.07s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers -0.03s call tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta -0.02s call tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype -================ 122 passed, 18 skipped, 179 warnings in 19.19s ================ +1.30s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange +1.11s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks +0.96s call tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange +0.90s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split +0.86s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split +0.81s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize +0.62s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws +0.52s call tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid +0.36s call tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split +0.30s call tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency +0.24s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed +0.20s call tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta +0.15s setup tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations +0.12s setup tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations +0.11s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity +0.11s call tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows +0.08s call tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name +0.08s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers +0.06s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testDeletionQV +0.05s call tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta +================ 122 passed, 18 skipped, 179 warnings in 29.17s ================ # copy working test data into doc dir as user examples mkdir -p _tmp/usr/share/doc/python3-pbcore cp -a tests _tmp/usr/share/doc/python3-pbcore @@ -1775,7 +1846,7 @@ # move back ignored tests mv /tmp/tests_avoid/* tests rmdir /tmp/tests_avoid -make[1]: Leaving directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' +make[1]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt verlaten create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild @@ -2076,24 +2147,24 @@ Installing .open script to /build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg/debian/python3-pbcore/usr/bin I: pybuild pybuild:310: chmod -x /build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg/debian/python3-pbcore//usr/lib/python3.9/dist-packages/pbcore/data/datasets/*.xml debian/rules override_dh_install -make[1]: Entering directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' -debian/rules:54: warning: overriding recipe for target 'override_dh_auto_clean' -debian/rules:27: warning: ignoring old recipe for target 'override_dh_auto_clean' +make[1]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt binnengegaan +debian/rules:54: Waarschuwing: er wordt voorbijgegaan aan recept voor doel 'override_dh_auto_clean' +debian/rules:27: Waarschuwing: oud recept voor doel 'override_dh_auto_clean' wordt genegeerd dh_install mv /build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg/debian/python3-pbcore/usr/bin/.open /build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg/debian/python3-pbcore/usr/bin/pbopen -make[1]: Leaving directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' +make[1]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt verlaten debian/rules override_dh_installdocs -make[1]: Entering directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' -debian/rules:54: warning: overriding recipe for target 'override_dh_auto_clean' -debian/rules:27: warning: ignoring old recipe for target 'override_dh_auto_clean' +make[1]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt binnengegaan +debian/rules:54: Waarschuwing: er wordt voorbijgegaan aan recept voor doel 'override_dh_auto_clean' +debian/rules:27: Waarschuwing: oud recept voor doel 'override_dh_auto_clean' wordt genegeerd dh_installdocs -X _source -make[1]: Leaving directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' +make[1]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt verlaten debian/rules override_dh_installchangelogs -make[1]: Entering directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' -debian/rules:54: warning: overriding recipe for target 'override_dh_auto_clean' -debian/rules:27: warning: ignoring old recipe for target 'override_dh_auto_clean' +make[1]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt binnengegaan +debian/rules:54: Waarschuwing: er wordt voorbijgegaan aan recept voor doel 'override_dh_auto_clean' +debian/rules:27: Waarschuwing: oud recept voor doel 'override_dh_auto_clean' wordt genegeerd dh_installchangelogs CHANGELOG.org -make[1]: Leaving directory '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' +make[1]: Map '/build/python-pbcore-1.7.1+git20200430.a127b1e+dfsg' wordt verlaten dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installinit -O--buildsystem=pybuild @@ -2109,8 +2180,8 @@ dpkg-gencontrol: warning: Depends field of package python-pbcore-doc: substitution variable ${sphinxdoc:Depends} used, but is not defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild -dpkg-deb: building package 'python3-pbcore' in '../python3-pbcore_1.7.1+git20200430.a127b1e+dfsg-1_all.deb'. -dpkg-deb: building package 'python-pbcore-doc' in '../python-pbcore-doc_1.7.1+git20200430.a127b1e+dfsg-1_all.deb'. +dpkg-deb: pakket 'python-pbcore-doc' wordt gebouwd in '../python-pbcore-doc_1.7.1+git20200430.a127b1e+dfsg-1_all.deb'. +dpkg-deb: pakket 'python3-pbcore' wordt gebouwd in '../python3-pbcore_1.7.1+git20200430.a127b1e+dfsg-1_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../python-pbcore_1.7.1+git20200430.a127b1e+dfsg-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -2118,12 +2189,14 @@ 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/27337/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/27337/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/31857 and its subdirectories -I: Current time: Thu Sep 15 23:54:49 -12 2022 -I: pbuilder-time-stamp: 1663329289 +I: removing directory /srv/workspace/pbuilder/27337 and its subdirectories +I: Current time: Sat Aug 14 19:35:18 +14 2021 +I: pbuilder-time-stamp: 1628919318