Diff of the two buildlogs: -- --- b1/build.log 2020-08-31 04:07:58.208992224 +0000 +++ b2/build.log 2020-08-31 04:10:02.171727991 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sun Aug 30 15:57:33 -12 2020 -I: pbuilder-time-stamp: 1598846253 +I: Current time: Mon Oct 4 00:30:59 +14 2021 +I: pbuilder-time-stamp: 1633257059 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration @@ -18,7 +18,7 @@ I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error -gpgv: Signature made Wed Jan 30 07:52:42 2019 -12 +gpgv: Signature made Thu Jan 31 09:52:42 2019 +14 gpgv: using RSA key B1A51EB2779DD01743CC19BA1CF792111B5228B0 gpgv: issuer "mestia@debian.org" gpgv: Can't check signature: No public key @@ -32,138 +32,172 @@ dpkg-source: info: applying arch_specific_flags.patch I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2544/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/58080/tmp/hooks/D01_modify_environment starting +debug: Running on profitbricks-build6-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/58080/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/58080/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 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]="0" [2]="3" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") + BASH_VERSION='5.0.3(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=i386 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all 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='6ae311a55add45e69774a490af0eba2d' - 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='2544' - PS1='# ' - PS2='> ' + INVOCATION_ID=c11510b5440a4fab9a938c1b2ef2d313 + 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=58080 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.OzXFi6ff6P/pbuilderrc_OwJa --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.OzXFi6ff6P/b1 --logfile b1/build.log subread_1.6.3+dfsg-1.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.OzXFi6ff6P/pbuilderrc_Eb4i --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.OzXFi6ff6P/b2 --logfile b2/build.log subread_1.6.3+dfsg-1.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 profitbricks-build12-i386 4.19.0-10-686-pae #1 SMP Debian 4.19.132-1 (2020-07-24) i686 GNU/Linux + Linux i-capture-the-hostname 4.19.0-10-amd64 #1 SMP Debian 4.19.132-1 (2020-07-24) x86_64 GNU/Linux I: ls -l /bin total 5476 - -rwxr-xr-x 1 root root 1302248 Apr 17 2019 bash - -rwxr-xr-x 3 root root 38280 Jul 10 2019 bunzip2 - -rwxr-xr-x 3 root root 38280 Jul 10 2019 bzcat - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep - -rwxr-xr-x 3 root root 38280 Jul 10 2019 bzip2 - -rwxr-xr-x 1 root root 17768 Jul 10 2019 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore - -rwxr-xr-x 1 root root 38692 Feb 28 2019 cat - -rwxr-xr-x 1 root root 75588 Feb 28 2019 chgrp - -rwxr-xr-x 1 root root 63268 Feb 28 2019 chmod - -rwxr-xr-x 1 root root 75588 Feb 28 2019 chown - -rwxr-xr-x 1 root root 153732 Feb 28 2019 cp - -rwxr-xr-x 1 root root 132820 Jan 17 2019 dash - -rwxr-xr-x 1 root root 120676 Feb 28 2019 date - -rwxr-xr-x 1 root root 92040 Feb 28 2019 dd - -rwxr-xr-x 1 root root 100620 Feb 28 2019 df - -rwxr-xr-x 1 root root 149736 Feb 28 2019 dir - -rwxr-xr-x 1 root root 79412 Jan 9 2019 dmesg - lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname - -rwxr-xr-x 1 root root 34532 Feb 28 2019 echo - -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep - -rwxr-xr-x 1 root root 34532 Feb 28 2019 false - -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep - -rwxr-xr-x 1 root root 67700 Jan 9 2019 findmnt - -rwsr-xr-x 1 root root 30112 Apr 22 07:38 fusermount - -rwxr-xr-x 1 root root 206392 Jan 7 2019 grep - -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip - -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe - -rwxr-xr-x 1 root root 100952 Jan 5 2019 gzip - -rwxr-xr-x 1 root root 21916 Sep 26 2018 hostname - -rwxr-xr-x 1 root root 79752 Feb 28 2019 ln - -rwxr-xr-x 1 root root 55400 Jul 26 2018 login - -rwxr-xr-x 1 root root 149736 Feb 28 2019 ls - -rwxr-xr-x 1 root root 112032 Jan 9 2019 lsblk - -rwxr-xr-x 1 root root 87972 Feb 28 2019 mkdir - -rwxr-xr-x 1 root root 79748 Feb 28 2019 mknod - -rwxr-xr-x 1 root root 46916 Feb 28 2019 mktemp - -rwxr-xr-x 1 root root 42348 Jan 9 2019 more - -rwsr-xr-x 1 root root 50592 Jan 9 2019 mount - -rwxr-xr-x 1 root root 13724 Jan 9 2019 mountpoint - -rwxr-xr-x 1 root root 157832 Feb 28 2019 mv - lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 38660 Feb 28 2019 pwd - lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash - -rwxr-xr-x 1 root root 46852 Feb 28 2019 readlink - -rwxr-xr-x 1 root root 75588 Feb 28 2019 rm - -rwxr-xr-x 1 root root 42756 Feb 28 2019 rmdir - -rwxr-xr-x 1 root root 22276 Jan 21 2019 run-parts - -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Aug 23 20:27 sh -> dash - -rwxr-xr-x 1 root root 34532 Feb 28 2019 sleep - -rwxr-xr-x 1 root root 79652 Feb 28 2019 stty - -rwsr-xr-x 1 root root 71072 Jan 9 2019 su - -rwxr-xr-x 1 root root 34564 Feb 28 2019 sync - -rwxr-xr-x 1 root root 504024 Apr 23 2019 tar - -rwxr-xr-x 1 root root 13860 Jan 21 2019 tempfile - -rwxr-xr-x 1 root root 104292 Feb 28 2019 touch - -rwxr-xr-x 1 root root 34532 Feb 28 2019 true - -rwxr-xr-x 1 root root 17768 Apr 22 07:38 ulockmgr_server - -rwsr-xr-x 1 root root 30108 Jan 9 2019 umount - -rwxr-xr-x 1 root root 34532 Feb 28 2019 uname - -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress - -rwxr-xr-x 1 root root 149736 Feb 28 2019 vdir - -rwxr-xr-x 1 root root 34208 Jan 9 2019 wdctl - -rwxr-xr-x 1 root root 946 Jan 21 2019 which - lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat - -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp - -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff - -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep - -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep - -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce - -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep - -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless - -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore - -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew -I: user script /srv/workspace/pbuilder/2544/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1302248 Apr 18 2019 bash + -rwxr-xr-x 3 root root 38280 Jul 11 2019 bunzip2 + -rwxr-xr-x 3 root root 38280 Jul 11 2019 bzcat + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2227 Jul 11 2019 bzdiff + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4877 Jun 25 2019 bzexe + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3641 Jul 11 2019 bzgrep + -rwxr-xr-x 3 root root 38280 Jul 11 2019 bzip2 + -rwxr-xr-x 1 root root 17768 Jul 11 2019 bzip2recover + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Jul 11 2019 bzmore + -rwxr-xr-x 1 root root 38692 Mar 1 2019 cat + -rwxr-xr-x 1 root root 75588 Mar 1 2019 chgrp + -rwxr-xr-x 1 root root 63268 Mar 1 2019 chmod + -rwxr-xr-x 1 root root 75588 Mar 1 2019 chown + -rwxr-xr-x 1 root root 153732 Mar 1 2019 cp + -rwxr-xr-x 1 root root 132820 Jan 18 2019 dash + -rwxr-xr-x 1 root root 120676 Mar 1 2019 date + -rwxr-xr-x 1 root root 92040 Mar 1 2019 dd + -rwxr-xr-x 1 root root 100620 Mar 1 2019 df + -rwxr-xr-x 1 root root 149736 Mar 1 2019 dir + -rwxr-xr-x 1 root root 79412 Jan 10 2019 dmesg + lrwxrwxrwx 1 root root 8 Sep 27 2018 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Sep 27 2018 domainname -> hostname + -rwxr-xr-x 1 root root 34532 Mar 1 2019 echo + -rwxr-xr-x 1 root root 28 Jan 8 2019 egrep + -rwxr-xr-x 1 root root 34532 Mar 1 2019 false + -rwxr-xr-x 1 root root 28 Jan 8 2019 fgrep + -rwxr-xr-x 1 root root 67700 Jan 10 2019 findmnt + -rwsr-xr-x 1 root root 30112 Apr 23 2020 fusermount + -rwxr-xr-x 1 root root 206392 Jan 8 2019 grep + -rwxr-xr-x 2 root root 2345 Jan 6 2019 gunzip + -rwxr-xr-x 1 root root 6375 Jan 6 2019 gzexe + -rwxr-xr-x 1 root root 100952 Jan 6 2019 gzip + -rwxr-xr-x 1 root root 21916 Sep 27 2018 hostname + -rwxr-xr-x 1 root root 79752 Mar 1 2019 ln + -rwxr-xr-x 1 root root 55400 Jul 27 2018 login + -rwxr-xr-x 1 root root 149736 Mar 1 2019 ls + -rwxr-xr-x 1 root root 112032 Jan 10 2019 lsblk + -rwxr-xr-x 1 root root 87972 Mar 1 2019 mkdir + -rwxr-xr-x 1 root root 79748 Mar 1 2019 mknod + -rwxr-xr-x 1 root root 46916 Mar 1 2019 mktemp + -rwxr-xr-x 1 root root 42348 Jan 10 2019 more + -rwsr-xr-x 1 root root 50592 Jan 10 2019 mount + -rwxr-xr-x 1 root root 13724 Jan 10 2019 mountpoint + -rwxr-xr-x 1 root root 157832 Mar 1 2019 mv + lrwxrwxrwx 1 root root 8 Sep 27 2018 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Feb 15 2019 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 38660 Mar 1 2019 pwd + lrwxrwxrwx 1 root root 4 Apr 18 2019 rbash -> bash + -rwxr-xr-x 1 root root 46852 Mar 1 2019 readlink + -rwxr-xr-x 1 root root 75588 Mar 1 2019 rm + -rwxr-xr-x 1 root root 42756 Mar 1 2019 rmdir + -rwxr-xr-x 1 root root 22276 Jan 22 2019 run-parts + -rwxr-xr-x 1 root root 125036 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Oct 4 00:31 sh -> bash + lrwxrwxrwx 1 root root 4 Sep 27 04:47 sh.distrib -> dash + -rwxr-xr-x 1 root root 34532 Mar 1 2019 sleep + -rwxr-xr-x 1 root root 79652 Mar 1 2019 stty + -rwsr-xr-x 1 root root 71072 Jan 10 2019 su + -rwxr-xr-x 1 root root 34564 Mar 1 2019 sync + -rwxr-xr-x 1 root root 504024 Apr 24 2019 tar + -rwxr-xr-x 1 root root 13860 Jan 22 2019 tempfile + -rwxr-xr-x 1 root root 104292 Mar 1 2019 touch + -rwxr-xr-x 1 root root 34532 Mar 1 2019 true + -rwxr-xr-x 1 root root 17768 Apr 23 2020 ulockmgr_server + -rwsr-xr-x 1 root root 30108 Jan 10 2019 umount + -rwxr-xr-x 1 root root 34532 Mar 1 2019 uname + -rwxr-xr-x 2 root root 2345 Jan 6 2019 uncompress + -rwxr-xr-x 1 root root 149736 Mar 1 2019 vdir + -rwxr-xr-x 1 root root 34208 Jan 10 2019 wdctl + -rwxr-xr-x 1 root root 946 Jan 22 2019 which + lrwxrwxrwx 1 root root 8 Sep 27 2018 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1983 Jan 6 2019 zcat + -rwxr-xr-x 1 root root 1677 Jan 6 2019 zcmp + -rwxr-xr-x 1 root root 5879 Jan 6 2019 zdiff + -rwxr-xr-x 1 root root 29 Jan 6 2019 zegrep + -rwxr-xr-x 1 root root 29 Jan 6 2019 zfgrep + -rwxr-xr-x 1 root root 2080 Jan 6 2019 zforce + -rwxr-xr-x 1 root root 7584 Jan 6 2019 zgrep + -rwxr-xr-x 1 root root 2205 Jan 6 2019 zless + -rwxr-xr-x 1 root root 1841 Jan 6 2019 zmore + -rwxr-xr-x 1 root root 4552 Jan 6 2019 znew +I: user script /srv/workspace/pbuilder/58080/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -259,7 +293,7 @@ Get: 50 http://deb.debian.org/debian buster/main i386 debhelper all 12.1.1 [1016 kB] Get: 51 http://deb.debian.org/debian buster/main i386 help2man i386 1.47.8 [177 kB] Get: 52 http://deb.debian.org/debian buster/main i386 zlib1g-dev i386 1:1.2.11.dfsg-1 [216 kB] -Fetched 26.0 MB in 7s (3826 kB/s) +Fetched 26.0 MB in 0s (83.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:i386. (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 ... 19234 files and directories currently installed.) @@ -492,7 +526,7 @@ fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/subread-1.6.3+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b +I: Running cd /build/subread-1.6.3+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 subread dpkg-buildpackage: info: source version 1.6.3+dfsg-1 dpkg-buildpackage: info: source distribution unstable @@ -734,33 +768,33 @@ || There were 4 notes for reference sequences. || || The notes can be found in the log file, '../small1.log'. || || Scan uninformative subreads in reference sequences ... || -|| 8%, 0 mins elapsed, rate=240.8k bps/s, total=0m || -|| 16%, 0 mins elapsed, rate=309.7k bps/s, total=0m || -|| 24%, 0 mins elapsed, rate=379.3k bps/s, total=0m || -|| 33%, 0 mins elapsed, rate=433.9k bps/s, total=0m || -|| 41%, 0 mins elapsed, rate=488.4k bps/s, total=0m || -|| 49%, 0 mins elapsed, rate=537.0k bps/s, total=0m || -|| 58%, 0 mins elapsed, rate=577.4k bps/s, total=0m || -|| 66%, 0 mins elapsed, rate=624.7k bps/s, total=0m || -|| 74%, 0 mins elapsed, rate=668.3k bps/s, total=0m || -|| 83%, 0 mins elapsed, rate=706.1k bps/s, total=0m || -|| 91%, 0 mins elapsed, rate=752.5k bps/s, total=0m || -|| 99%, 0 mins elapsed, rate=782.9k bps/s, total=0m || +|| 8%, 0 mins elapsed, rate=298.6k bps/s, total=0m || +|| 16%, 0 mins elapsed, rate=380.4k bps/s, total=0m || +|| 24%, 0 mins elapsed, rate=462.9k bps/s, total=0m || +|| 33%, 0 mins elapsed, rate=528.2k bps/s, total=0m || +|| 41%, 0 mins elapsed, rate=592.6k bps/s, total=0m || +|| 49%, 0 mins elapsed, rate=650.9k bps/s, total=0m || +|| 58%, 0 mins elapsed, rate=699.3k bps/s, total=0m || +|| 66%, 0 mins elapsed, rate=754.9k bps/s, total=0m || +|| 74%, 0 mins elapsed, rate=805.4k bps/s, total=0m || +|| 83%, 0 mins elapsed, rate=842.4k bps/s, total=0m || +|| 91%, 0 mins elapsed, rate=895.0k bps/s, total=0m || +|| 99%, 0 mins elapsed, rate=925.7k bps/s, total=0m || || 52 uninformative subreads were found. || || These subreads were excluded from index building. || || Build the index... || -|| 8%, 0 mins elapsed, rate=1190.2k bps/s, total=0m || -|| 16%, 0 mins elapsed, rate=1149.2k bps/s, total=0m || -|| 24%, 0 mins elapsed, rate=1151.8k bps/s, total=0m || -|| 33%, 0 mins elapsed, rate=1149.2k bps/s, total=0m || -|| 41%, 0 mins elapsed, rate=1144.5k bps/s, total=0m || -|| 49%, 0 mins elapsed, rate=1143.9k bps/s, total=0m || -|| 58%, 0 mins elapsed, rate=1145.8k bps/s, total=0m || -|| 66%, 0 mins elapsed, rate=1153.2k bps/s, total=0m || -|| 74%, 0 mins elapsed, rate=1168.0k bps/s, total=0m || -|| 83%, 0 mins elapsed, rate=1166.9k bps/s, total=0m || -|| 91%, 0 mins elapsed, rate=1193.3k bps/s, total=0m || -|| 99%, 0 mins elapsed, rate=1190.2k bps/s, total=0m || +|| 8%, 0 mins elapsed, rate=1772.7k bps/s, total=0m || +|| 16%, 0 mins elapsed, rate=1735.8k bps/s, total=0m || +|| 24%, 0 mins elapsed, rate=1772.7k bps/s, total=0m || +|| 33%, 0 mins elapsed, rate=1772.7k bps/s, total=0m || +|| 41%, 0 mins elapsed, rate=1780.3k bps/s, total=0m || +|| 49%, 0 mins elapsed, rate=1779.0k bps/s, total=0m || +|| 58%, 0 mins elapsed, rate=1783.5k bps/s, total=0m || +|| 66%, 0 mins elapsed, rate=1796.6k bps/s, total=0m || +|| 74%, 0 mins elapsed, rate=1820.0k bps/s, total=0m || +|| 83%, 0 mins elapsed, rate=1823.1k bps/s, total=0m || +|| 91%, 0 mins elapsed, rate=1862.8k bps/s, total=0m || +|| 99%, 0 mins elapsed, rate=1858.4k bps/s, total=0m || || Save current index block... || || [ 0.0% finished ] || || [ 10.0% finished ] || @@ -774,7 +808,7 @@ || [ 90.0% finished ] || || [ 100.0% finished ] || || || -|| Total running time: 1.0 minutes. || +|| Total running time: 0.1 minutes. || || Index ../small1 was successfully built! || || || \\===================== http://subread.sourceforge.net/ ======================// @@ -807,19 +841,19 @@ || || \\===================== http://subread.sourceforge.net/ ======================// -//================ Running (30-Aug-2020 16:04:24, pid=21948) =================\\ +//================ Running (04-Oct-2021 00:31:59, pid=62331) =================\\ || || || The input file contains base space reads. || || The range of Phred scores observed in the data is [9,9] || || Load the 1-th index block... || -|| 33% completed, 0.0 mins elapsed, rate=44.7k reads per second || -|| 39% completed, 0.0 mins elapsed, rate=45.0k reads per second || -|| 46% completed, 0.0 mins elapsed, rate=44.7k reads per second || -|| 53% completed, 0.0 mins elapsed, rate=44.8k reads per second || -|| 60% completed, 0.0 mins elapsed, rate=45.0k reads per second || -|| 74% completed, 0.0 mins elapsed, rate=9.1k reads per second || -|| 83% completed, 0.0 mins elapsed, rate=6.2k reads per second || -|| 91% completed, 0.1 mins elapsed, rate=5.7k reads per second || +|| 33% completed, 0.0 mins elapsed, rate=59.0k reads per second || +|| 39% completed, 0.0 mins elapsed, rate=58.8k reads per second || +|| 46% completed, 0.0 mins elapsed, rate=58.7k reads per second || +|| 53% completed, 0.0 mins elapsed, rate=59.0k reads per second || +|| 60% completed, 0.0 mins elapsed, rate=59.1k reads per second || +|| 74% completed, 0.0 mins elapsed, rate=20.0k reads per second || +|| 83% completed, 0.0 mins elapsed, rate=20.8k reads per second || +|| 91% completed, 0.0 mins elapsed, rate=21.5k reads per second || || || || Completed successfully. || || || @@ -836,7 +870,7 @@ || || || Indels : 3 || || || -|| Running time : 0.1 minutes || +|| Running time : 0.0 minutes || || || \\===================== http://subread.sourceforge.net/ ======================// @@ -868,19 +902,19 @@ || || \\===================== http://subread.sourceforge.net/ ======================// -//================ Running (30-Aug-2020 16:04:28, pid=22457) =================\\ +//================ Running (04-Oct-2021 00:32:00, pid=62407) =================\\ || || || The input file contains base space reads. || || The range of Phred scores observed in the data is [9,9] || || Load the 1-th index block... || -|| 33% completed, 0.0 mins elapsed, rate=41.9k reads per second || -|| 39% completed, 0.0 mins elapsed, rate=41.5k reads per second || -|| 46% completed, 0.0 mins elapsed, rate=40.9k reads per second || -|| 53% completed, 0.0 mins elapsed, rate=40.7k reads per second || -|| 60% completed, 0.0 mins elapsed, rate=41.1k reads per second || -|| 74% completed, 0.0 mins elapsed, rate=7.9k reads per second || -|| 83% completed, 0.0 mins elapsed, rate=7.5k reads per second || -|| 91% completed, 0.0 mins elapsed, rate=7.3k reads per second || +|| 33% completed, 0.0 mins elapsed, rate=58.5k reads per second || +|| 39% completed, 0.0 mins elapsed, rate=58.4k reads per second || +|| 46% completed, 0.0 mins elapsed, rate=58.3k reads per second || +|| 53% completed, 0.0 mins elapsed, rate=58.3k reads per second || +|| 60% completed, 0.0 mins elapsed, rate=58.6k reads per second || +|| 74% completed, 0.0 mins elapsed, rate=20.3k reads per second || +|| 83% completed, 0.0 mins elapsed, rate=21.1k reads per second || +|| 91% completed, 0.0 mins elapsed, rate=21.8k reads per second || || || || Completed successfully. || || || @@ -934,19 +968,19 @@ || || \\===================== http://subread.sourceforge.net/ ======================// -//================ Running (30-Aug-2020 16:04:31, pid=23293) =================\\ +//================ Running (04-Oct-2021 00:32:01, pid=62526) =================\\ || || || The input file contains base space reads. || || The range of Phred scores observed in the data is [9,9] || || Load the 1-th index block... || -|| 33% completed, 0.0 mins elapsed, rate=21.1k fragments per second || -|| 39% completed, 0.0 mins elapsed, rate=21.1k fragments per second || -|| 46% completed, 0.0 mins elapsed, rate=21.1k fragments per second || -|| 53% completed, 0.0 mins elapsed, rate=21.0k fragments per second || -|| 60% completed, 0.0 mins elapsed, rate=21.0k fragments per second || -|| 74% completed, 0.1 mins elapsed, rate=3.6k fragments per second || -|| 83% completed, 0.1 mins elapsed, rate=3.2k fragments per second || -|| 91% completed, 0.1 mins elapsed, rate=2.5k fragments per second || +|| 33% completed, 0.0 mins elapsed, rate=27.4k fragments per second || +|| 39% completed, 0.0 mins elapsed, rate=27.4k fragments per second || +|| 46% completed, 0.0 mins elapsed, rate=27.1k fragments per second || +|| 53% completed, 0.0 mins elapsed, rate=27.3k fragments per second || +|| 60% completed, 0.0 mins elapsed, rate=27.3k fragments per second || +|| 74% completed, 0.0 mins elapsed, rate=14.2k fragments per second || +|| 83% completed, 0.0 mins elapsed, rate=14.3k fragments per second || +|| 91% completed, 0.0 mins elapsed, rate=12.6k fragments per second || || || || Completed successfully. || || || @@ -971,7 +1005,7 @@ || || || Indels : 14 || || || -|| Running time : 0.2 minutes || +|| Running time : 0.0 minutes || || || \\===================== http://subread.sourceforge.net/ ======================// @@ -1008,19 +1042,19 @@ || || \\===================== http://subread.sourceforge.net/ ======================// -//================ Running (30-Aug-2020 16:04:42, pid=25390) =================\\ +//================ Running (04-Oct-2021 00:32:03, pid=62654) =================\\ || || || The input file contains base space reads. || || The range of Phred scores observed in the data is [9,9] || || Load the 1-th index block... || -|| 33% completed, 0.0 mins elapsed, rate=19.2k fragments per second || -|| 39% completed, 0.0 mins elapsed, rate=19.2k fragments per second || -|| 46% completed, 0.0 mins elapsed, rate=19.1k fragments per second || -|| 53% completed, 0.0 mins elapsed, rate=19.1k fragments per second || -|| 60% completed, 0.0 mins elapsed, rate=19.1k fragments per second || -|| 74% completed, 0.1 mins elapsed, rate=3.4k fragments per second || -|| 83% completed, 0.1 mins elapsed, rate=3.1k fragments per second || -|| 91% completed, 0.1 mins elapsed, rate=2.4k fragments per second || +|| 33% completed, 0.0 mins elapsed, rate=27.7k fragments per second || +|| 39% completed, 0.0 mins elapsed, rate=27.7k fragments per second || +|| 46% completed, 0.0 mins elapsed, rate=27.6k fragments per second || +|| 53% completed, 0.0 mins elapsed, rate=27.5k fragments per second || +|| 60% completed, 0.0 mins elapsed, rate=27.5k fragments per second || +|| 74% completed, 0.0 mins elapsed, rate=14.1k fragments per second || +|| 83% completed, 0.0 mins elapsed, rate=14.2k fragments per second || +|| 91% completed, 0.0 mins elapsed, rate=14.4k fragments per second || || || || Completed successfully. || || || @@ -1045,7 +1079,7 @@ || || || Indels : 14 || || || -|| Running time : 0.2 minutes || +|| Running time : 0.0 minutes || || || \\===================== http://subread.sourceforge.net/ ======================// @@ -1082,19 +1116,19 @@ || || \\===================== http://subread.sourceforge.net/ ======================// -//================ Running (30-Aug-2020 16:04:53, pid=25551) =================\\ +//================ Running (04-Oct-2021 00:32:05, pid=62707) =================\\ || || || The input file contains base space reads. || || The range of Phred scores observed in the data is [-14,-14] || || Load the 1-th index block... || -|| 33% completed, 0.0 mins elapsed, rate=20.1k fragments per second || -|| 39% completed, 0.0 mins elapsed, rate=20.2k fragments per second || -|| 46% completed, 0.0 mins elapsed, rate=20.3k fragments per second || -|| 53% completed, 0.0 mins elapsed, rate=20.3k fragments per second || -|| 60% completed, 0.0 mins elapsed, rate=20.3k fragments per second || -|| 74% completed, 0.1 mins elapsed, rate=4.6k fragments per second || -|| 83% completed, 0.1 mins elapsed, rate=3.5k fragments per second || -|| 91% completed, 0.1 mins elapsed, rate=2.6k fragments per second || +|| 33% completed, 0.0 mins elapsed, rate=29.8k fragments per second || +|| 39% completed, 0.0 mins elapsed, rate=29.9k fragments per second || +|| 46% completed, 0.0 mins elapsed, rate=29.8k fragments per second || +|| 53% completed, 0.0 mins elapsed, rate=30.0k fragments per second || +|| 60% completed, 0.0 mins elapsed, rate=30.0k fragments per second || +|| 74% completed, 0.0 mins elapsed, rate=14.4k fragments per second || +|| 83% completed, 0.0 mins elapsed, rate=14.5k fragments per second || +|| 91% completed, 0.0 mins elapsed, rate=14.6k fragments per second || || || || Completed successfully. || || || @@ -1119,7 +1153,7 @@ || || || Indels : 31 || || || -|| Running time : 0.1 minutes || +|| Running time : 0.0 minutes || || || \\===================== http://subread.sourceforge.net/ ======================// @@ -1157,20 +1191,20 @@ || || \\===================== http://subread.sourceforge.net/ ======================// -//================ Running (30-Aug-2020 16:05:02, pid=25838) =================\\ +//================ Running (04-Oct-2021 00:32:07, pid=62711) =================\\ || || || The input file contains base space reads. || || The range of Phred scores observed in the data is [-14,-14] || || Load the 1-th index block... || -|| 34% completed, 0.0 mins elapsed, rate=21.9k fragments per second || -|| 40% completed, 0.0 mins elapsed, rate=22.4k fragments per second || -|| 48% completed, 0.0 mins elapsed, rate=22.8k fragments per second || -|| 53% completed, 0.0 mins elapsed, rate=23.2k fragments per second || -|| 59% completed, 0.0 mins elapsed, rate=23.4k fragments per second || -|| 67% completed, 0.0 mins elapsed, rate=23.7k fragments per second || -|| 75% completed, 0.1 mins elapsed, rate=3.2k fragments per second || -|| 83% completed, 0.1 mins elapsed, rate=3.0k fragments per second || -|| 92% completed, 0.1 mins elapsed, rate=3.0k fragments per second || +|| 34% completed, 0.0 mins elapsed, rate=28.3k fragments per second || +|| 40% completed, 0.0 mins elapsed, rate=28.8k fragments per second || +|| 48% completed, 0.0 mins elapsed, rate=29.2k fragments per second || +|| 53% completed, 0.0 mins elapsed, rate=29.6k fragments per second || +|| 59% completed, 0.0 mins elapsed, rate=30.0k fragments per second || +|| 67% completed, 0.0 mins elapsed, rate=30.3k fragments per second || +|| 75% completed, 0.0 mins elapsed, rate=13.8k fragments per second || +|| 83% completed, 0.0 mins elapsed, rate=14.5k fragments per second || +|| 92% completed, 0.0 mins elapsed, rate=15.2k fragments per second || || || || Completed successfully. || || || @@ -1195,7 +1229,7 @@ || || || Indels : 161 || || || -|| Running time : 0.1 minutes || +|| Running time : 0.0 minutes || || || \\===================== http://subread.sourceforge.net/ ======================// @@ -1276,33 +1310,33 @@ || There were 4 notes for reference sequences. || || The notes can be found in the log file, '../small1.log'. || || Scan uninformative subreads in reference sequences ... || -|| 8%, 0 mins elapsed, rate=517.5k bps/s, total=0m || -|| 16%, 0 mins elapsed, rate=617.2k bps/s, total=0m || -|| 24%, 0 mins elapsed, rate=712.1k bps/s, total=0m || -|| 33%, 0 mins elapsed, rate=786.0k bps/s, total=0m || -|| 41%, 0 mins elapsed, rate=857.2k bps/s, total=0m || -|| 49%, 0 mins elapsed, rate=918.9k bps/s, total=0m || -|| 58%, 0 mins elapsed, rate=970.4k bps/s, total=0m || -|| 66%, 0 mins elapsed, rate=1028.6k bps/s, total=0m || -|| 74%, 0 mins elapsed, rate=1078.9k bps/s, total=0m || -|| 83%, 0 mins elapsed, rate=1125.9k bps/s, total=0m || -|| 91%, 0 mins elapsed, rate=1178.0k bps/s, total=0m || -|| 99%, 0 mins elapsed, rate=1213.4k bps/s, total=0m || +|| 8%, 0 mins elapsed, rate=694.3k bps/s, total=0m || +|| 16%, 0 mins elapsed, rate=801.1k bps/s, total=0m || +|| 24%, 0 mins elapsed, rate=915.6k bps/s, total=0m || +|| 33%, 0 mins elapsed, rate=1000.8k bps/s, total=0m || +|| 41%, 0 mins elapsed, rate=1084.9k bps/s, total=0m || +|| 49%, 0 mins elapsed, rate=1159.9k bps/s, total=0m || +|| 58%, 0 mins elapsed, rate=1222.7k bps/s, total=0m || +|| 66%, 0 mins elapsed, rate=1291.7k bps/s, total=0m || +|| 74%, 0 mins elapsed, rate=1353.5k bps/s, total=0m || +|| 83%, 0 mins elapsed, rate=1409.8k bps/s, total=0m || +|| 91%, 0 mins elapsed, rate=1473.5k bps/s, total=0m || +|| 99%, 0 mins elapsed, rate=1517.2k bps/s, total=0m || || 2 uninformative subreads were found. || || These subreads were excluded from index building. || || Build the index... || -|| 8%, 0 mins elapsed, rate=2380.5k bps/s, total=0m || -|| 16%, 0 mins elapsed, rate=2450.5k bps/s, total=0m || -|| 24%, 0 mins elapsed, rate=2603.7k bps/s, total=0m || -|| 33%, 0 mins elapsed, rate=2687.6k bps/s, total=0m || -|| 41%, 0 mins elapsed, rate=2722.8k bps/s, total=0m || -|| 49%, 0 mins elapsed, rate=2761.9k bps/s, total=0m || -|| 58%, 0 mins elapsed, rate=2803.9k bps/s, total=0m || -|| 66%, 0 mins elapsed, rate=2824.3k bps/s, total=0m || -|| 74%, 0 mins elapsed, rate=2862.0k bps/s, total=0m || -|| 83%, 0 mins elapsed, rate=2882.9k bps/s, total=0m || -|| 91%, 0 mins elapsed, rate=2918.7k bps/s, total=0m || -|| 99%, 0 mins elapsed, rate=2932.0k bps/s, total=0m || +|| 8%, 0 mins elapsed, rate=4628.8k bps/s, total=0m || +|| 16%, 0 mins elapsed, rate=4628.7k bps/s, total=0m || +|| 24%, 0 mins elapsed, rate=4628.7k bps/s, total=0m || +|| 33%, 0 mins elapsed, rate=4628.7k bps/s, total=0m || +|| 41%, 0 mins elapsed, rate=4628.7k bps/s, total=0m || +|| 49%, 0 mins elapsed, rate=4672.0k bps/s, total=0m || +|| 58%, 0 mins elapsed, rate=4703.4k bps/s, total=0m || +|| 66%, 0 mins elapsed, rate=4693.9k bps/s, total=0m || +|| 74%, 0 mins elapsed, rate=4716.1k bps/s, total=0m || +|| 83%, 0 mins elapsed, rate=4733.9k bps/s, total=0m || +|| 91%, 0 mins elapsed, rate=4798.4k bps/s, total=0m || +|| 99%, 0 mins elapsed, rate=4806.8k bps/s, total=0m || || Save current index block... || || [ 0.0% finished ] || || [ 10.0% finished ] || @@ -1316,7 +1350,7 @@ || [ 90.0% finished ] || || [ 100.0% finished ] || || || -|| Total running time: 0.2 minutes. || +|| Total running time: 0.0 minutes. || || Index ../small1 was successfully built! || || || \\===================== http://subread.sourceforge.net/ ======================// @@ -1354,18 +1388,18 @@ || || \\===================== http://subread.sourceforge.net/ ======================// -//================ Running (30-Aug-2020 16:05:23, pid=26342) =================\\ +//================ Running (04-Oct-2021 00:32:10, pid=62763) =================\\ || || || The input file contains base space reads. || || The range of Phred scores observed in the data is [2,41] || || Load the 1-th index block... || -|| 41% completed, 0.0 mins elapsed, rate=11.9k fragments per second || -|| 48% completed, 0.0 mins elapsed, rate=11.9k fragments per second || -|| 54% completed, 0.0 mins elapsed, rate=12.0k fragments per second || -|| 61% completed, 0.0 mins elapsed, rate=12.0k fragments per second || -|| 77% completed, 0.1 mins elapsed, rate=2.1k fragments per second || -|| 87% completed, 0.2 mins elapsed, rate=1.6k fragments per second || -|| 97% completed, 0.2 mins elapsed, rate=1.3k fragments per second || +|| 41% completed, 0.0 mins elapsed, rate=15.5k fragments per second || +|| 48% completed, 0.0 mins elapsed, rate=15.5k fragments per second || +|| 54% completed, 0.0 mins elapsed, rate=15.6k fragments per second || +|| 61% completed, 0.0 mins elapsed, rate=15.6k fragments per second || +|| 77% completed, 0.0 mins elapsed, rate=10.2k fragments per second || +|| 87% completed, 0.0 mins elapsed, rate=10.5k fragments per second || +|| 97% completed, 0.0 mins elapsed, rate=10.7k fragments per second || || || || Completed successfully. || || || @@ -1391,7 +1425,7 @@ || Junctions : 416 || || Indels : 182 || || || -|| Running time : 0.2 minutes || +|| Running time : 0.0 minutes || || || \\===================== http://subread.sourceforge.net/ ======================// @@ -1428,18 +1462,18 @@ || || \\===================== http://subread.sourceforge.net/ ======================// -//================ Running (30-Aug-2020 16:05:35, pid=26708) =================\\ +//================ Running (04-Oct-2021 00:32:12, pid=62900) =================\\ || || || The input file contains base space reads. || || The range of Phred scores observed in the data is [2,41] || || Load the 1-th index block... || -|| 41% completed, 0.0 mins elapsed, rate=6.2k fragments per second || -|| 48% completed, 0.0 mins elapsed, rate=6.2k fragments per second || -|| 54% completed, 0.0 mins elapsed, rate=6.2k fragments per second || -|| 61% completed, 0.0 mins elapsed, rate=6.2k fragments per second || -|| 77% completed, 0.1 mins elapsed, rate=3.2k fragments per second || -|| 87% completed, 0.1 mins elapsed, rate=2.3k fragments per second || -|| 97% completed, 0.1 mins elapsed, rate=2.1k fragments per second || +|| 41% completed, 0.0 mins elapsed, rate=8.6k fragments per second || +|| 48% completed, 0.0 mins elapsed, rate=8.6k fragments per second || +|| 54% completed, 0.0 mins elapsed, rate=8.6k fragments per second || +|| 61% completed, 0.0 mins elapsed, rate=8.6k fragments per second || +|| 77% completed, 0.0 mins elapsed, rate=7.2k fragments per second || +|| 87% completed, 0.0 mins elapsed, rate=7.4k fragments per second || +|| 97% completed, 0.0 mins elapsed, rate=7.5k fragments per second || || || || Completed successfully. || || || @@ -1466,7 +1500,7 @@ || Fusions : 32 || || Indels : 182 || || || -|| Running time : 0.1 minutes || +|| Running time : 0.0 minutes || || || \\===================== http://subread.sourceforge.net/ ======================// @@ -1567,7 +1601,9 @@ Testing Allowing multi-mapped reads ... [PASS] Testing not sorting input file ... [PASS] Testing minimum overlapping length ... [PASS] -Testing minimum overlapping fraction ... [PASS] +Testing minimum overlapping fraction ... [data/compare.sh: line 12: 63420 Aborted nohup ../../bin/featureCounts $PARAMETERS -o $TMPF.FC -a $ANNO_FILE $SAM_FILE > /dev/null 2>&1 +cat: data/DEL4-1633257134.FC: No such file or directory +FAILED] Testing Largest Overlapping ... [PASS] Testing paired-end distance ... [PASS] Testing Read to position (5' end) ... [PASS] @@ -1578,7 +1614,9 @@ Testing minimum mapping quality ... [PASS] Testing Ignoring duplicated reads ... [PASS] Testing Fraction counting ... [PASS] -Testing Advanced fractions ... [PASS] +Testing Advanced fractions ... [data/compare.sh: line 12: 63566 Aborted nohup ../../bin/featureCounts $PARAMETERS -o $TMPF.FC -a $ANNO_FILE $SAM_FILE > /dev/null 2>&1 +cat: data/DEL4-1633257134.FC: No such file or directory +FAILED] Testing Junction counting ... [PASS,PASS] Skipping Junction counting (with genome). Testing GTF format annotations ... [PASS] @@ -1632,9 +1670,9 @@ || || \\===================== http://subread.sourceforge.net/ ======================// -//====================== Running (30-Aug-2020 16:05:45) ======================\\ +//====================== Running (04-Oct-2021 00:32:14) ======================\\ || || -|| Split BAM file into result/temp-snps-027267-0E3A7145EF49-* ... || +|| Split BAM file into result/temp-snps-063852-388B41D119FC-* ... || || processed block chr901@999950 by thread 1/1 [block number=1/1] || || || || Completed successfully. || @@ -1647,7 +1685,7 @@ || Reported SNPs : 415 || || Reported indels : 21 || || || -|| Running time : 0.1 minutes || +|| Running time : 0.0 minutes || || || \\===================== http://subread.sourceforge.net/ ======================// @@ -1743,45 +1781,51 @@ -cJf /build/subread-1.6.3+dfsg/debian/subread-data/usr/share/doc/subread/examples/test.tar.xz test/ make[1]: Leaving directory '/build/subread-1.6.3+dfsg' dh_installman + man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/repair.1 > debian/subread/usr/share/man/man1/repair.1.dh-new + man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/removeDup.1 > debian/subread/usr/share/man/man1/removeDup.1.dh-new + man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subjunc.1 > debian/subread/usr/share/man/man1/subjunc.1.dh-new + man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/propmapped.1 > debian/subread/usr/share/man/man1/propmapped.1.dh-new + man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subread-buildindex.1 > debian/subread/usr/share/man/man1/subread-buildindex.1.dh-new + man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/qualityScores.1 > debian/subread/usr/share/man/man1/qualityScores.1.dh-new + man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subread-fullscan.1 > debian/subread/usr/share/man/man1/subread-fullscan.1.dh-new man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/featureCounts.1 > debian/subread/usr/share/man/man1/featureCounts.1.dh-new - man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/flattenGTF.1 > debian/subread/usr/share/man/man1/flattenGTF.1.dh-new - man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subread-align.1 > debian/subread/usr/share/man/man1/subread-align.1.dh-new man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/exactSNP.1 > debian/subread/usr/share/man/man1/exactSNP.1.dh-new + man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subread-align.1 > debian/subread/usr/share/man/man1/subread-align.1.dh-new man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subindel.1 > debian/subread/usr/share/man/man1/subindel.1.dh-new - man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/propmapped.1 > debian/subread/usr/share/man/man1/propmapped.1.dh-new - man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/removeDup.1 > debian/subread/usr/share/man/man1/removeDup.1.dh-new - mv debian/subread/usr/share/man/man1/subread-align.1.dh-new debian/subread/usr/share/man/man1/subread-align.1 + man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/flattenGTF.1 > debian/subread/usr/share/man/man1/flattenGTF.1.dh-new man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/sublong.1 > debian/subread/usr/share/man/man1/sublong.1.dh-new - mv debian/subread/usr/share/man/man1/exactSNP.1.dh-new debian/subread/usr/share/man/man1/exactSNP.1 - man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subread-fullscan.1 > debian/subread/usr/share/man/man1/subread-fullscan.1.dh-new - mv debian/subread/usr/share/man/man1/featureCounts.1.dh-new debian/subread/usr/share/man/man1/featureCounts.1 - man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subread-buildindex.1 > debian/subread/usr/share/man/man1/subread-buildindex.1.dh-new + mv debian/subread/usr/share/man/man1/subjunc.1.dh-new debian/subread/usr/share/man/man1/subjunc.1 + chmod 0644 -- debian/subread/usr/share/man/man1/subjunc.1 mv debian/subread/usr/share/man/man1/removeDup.1.dh-new debian/subread/usr/share/man/man1/removeDup.1 chmod 0644 -- debian/subread/usr/share/man/man1/removeDup.1 - mv debian/subread/usr/share/man/man1/flattenGTF.1.dh-new debian/subread/usr/share/man/man1/flattenGTF.1 - man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/qualityScores.1 > debian/subread/usr/share/man/man1/qualityScores.1.dh-new + mv debian/subread/usr/share/man/man1/repair.1.dh-new debian/subread/usr/share/man/man1/repair.1 + chmod 0644 -- debian/subread/usr/share/man/man1/repair.1 + mv debian/subread/usr/share/man/man1/subread-buildindex.1.dh-new debian/subread/usr/share/man/man1/subread-buildindex.1 + chmod 0644 -- debian/subread/usr/share/man/man1/subread-buildindex.1 mv debian/subread/usr/share/man/man1/propmapped.1.dh-new debian/subread/usr/share/man/man1/propmapped.1 - man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subjunc.1 > debian/subread/usr/share/man/man1/subjunc.1.dh-new - mv debian/subread/usr/share/man/man1/subindel.1.dh-new debian/subread/usr/share/man/man1/subindel.1 - man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/repair.1 > debian/subread/usr/share/man/man1/repair.1.dh-new + chmod 0644 -- debian/subread/usr/share/man/man1/propmapped.1 mv debian/subread/usr/share/man/man1/qualityScores.1.dh-new debian/subread/usr/share/man/man1/qualityScores.1 - chmod 0644 -- debian/subread/usr/share/man/man1/flattenGTF.1 debian/subread/usr/share/man/man1/qualityScores.1 - mv debian/subread/usr/share/man/man1/subread-buildindex.1.dh-new debian/subread/usr/share/man/man1/subread-buildindex.1 - chmod 0644 -- debian/subread/usr/share/man/man1/featureCounts.1 debian/subread/usr/share/man/man1/subread-buildindex.1 - mv debian/subread/usr/share/man/man1/sublong.1.dh-new debian/subread/usr/share/man/man1/sublong.1 - chmod 0644 -- debian/subread/usr/share/man/man1/subread-align.1 debian/subread/usr/share/man/man1/sublong.1 + chmod 0644 -- debian/subread/usr/share/man/man1/qualityScores.1 mv debian/subread/usr/share/man/man1/subread-fullscan.1.dh-new debian/subread/usr/share/man/man1/subread-fullscan.1 - chmod 0644 -- debian/subread/usr/share/man/man1/exactSNP.1 debian/subread/usr/share/man/man1/subread-fullscan.1 - mv debian/subread/usr/share/man/man1/repair.1.dh-new debian/subread/usr/share/man/man1/repair.1 - chmod 0644 -- debian/subread/usr/share/man/man1/subindel.1 debian/subread/usr/share/man/man1/repair.1 - mv debian/subread/usr/share/man/man1/subjunc.1.dh-new debian/subread/usr/share/man/man1/subjunc.1 - chmod 0644 -- debian/subread/usr/share/man/man1/propmapped.1 debian/subread/usr/share/man/man1/subjunc.1 + chmod 0644 -- debian/subread/usr/share/man/man1/subread-fullscan.1 + mv debian/subread/usr/share/man/man1/subread-align.1.dh-new debian/subread/usr/share/man/man1/subread-align.1 + chmod 0644 -- debian/subread/usr/share/man/man1/subread-align.1 + mv debian/subread/usr/share/man/man1/featureCounts.1.dh-new debian/subread/usr/share/man/man1/featureCounts.1 + chmod 0644 -- debian/subread/usr/share/man/man1/featureCounts.1 + mv debian/subread/usr/share/man/man1/exactSNP.1.dh-new debian/subread/usr/share/man/man1/exactSNP.1 + chmod 0644 -- debian/subread/usr/share/man/man1/exactSNP.1 + mv debian/subread/usr/share/man/man1/subindel.1.dh-new debian/subread/usr/share/man/man1/subindel.1 + chmod 0644 -- debian/subread/usr/share/man/man1/subindel.1 + mv debian/subread/usr/share/man/man1/flattenGTF.1.dh-new debian/subread/usr/share/man/man1/flattenGTF.1 + chmod 0644 -- debian/subread/usr/share/man/man1/flattenGTF.1 + mv debian/subread/usr/share/man/man1/sublong.1.dh-new debian/subread/usr/share/man/man1/sublong.1 + chmod 0644 -- debian/subread/usr/share/man/man1/sublong.1 dh_perl dh_link dh_strip_nondeterminism dh_compress - cd debian/subread-data cd debian/subread + cd debian/subread-data chmod a-x usr/share/doc/subread-data/changelog.Debian usr/share/doc/subread/examples/annotation/hg19_RefSeq_exon.txt usr/share/doc/subread/examples/annotation/hg38_RefSeq_exon.txt usr/share/doc/subread/examples/annotation/mm10_RefSeq_exon.txt usr/share/doc/subread/examples/annotation/mm9_RefSeq_exon.txt chmod a-x usr/share/doc/subread/changelog.Debian usr/share/man/man1/exactSNP.1 usr/share/man/man1/featureCounts.1 usr/share/man/man1/flattenGTF.1 usr/share/man/man1/propmapped.1 usr/share/man/man1/qualityScores.1 usr/share/man/man1/removeDup.1 usr/share/man/man1/repair.1 usr/share/man/man1/subindel.1 usr/share/man/man1/subjunc.1 usr/share/man/man1/sublong.1 usr/share/man/man1/subread-align.1 usr/share/man/man1/subread-buildindex.1 usr/share/man/man1/subread-fullscan.1 gzip -9nf usr/share/doc/subread-data/changelog.Debian usr/share/doc/subread/examples/annotation/hg19_RefSeq_exon.txt usr/share/doc/subread/examples/annotation/hg38_RefSeq_exon.txt usr/share/doc/subread/examples/annotation/mm10_RefSeq_exon.txt usr/share/doc/subread/examples/annotation/mm9_RefSeq_exon.txt @@ -1808,18 +1852,30 @@ dwz -q -mdebian/subread/usr/lib/debug/.dwz/i386-linux-gnu/subread.debug -M/usr/lib/debug/.dwz/i386-linux-gnu/subread.debug -- debian/subread/usr/bin/exactSNP debian/subread/usr/bin/featureCounts debian/subread/usr/bin/subindel debian/subread/usr/bin/subjunc debian/subread/usr/bin/sublong debian/subread/usr/bin/subread-align debian/subread/usr/bin/subread-buildindex debian/subread/usr/lib/subread/flattenGTF debian/subread/usr/lib/subread/propmapped debian/subread/usr/lib/subread/qualityScores debian/subread/usr/lib/subread/removeDup debian/subread/usr/lib/subread/repair debian/subread/usr/lib/subread/subread-fullscan debian/subread/usr/lib/subread/txUnique objcopy --compress-debug-sections debian/subread/usr/lib/debug/.dwz/i386-linux-gnu/subread.debug dh_strip - install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d8 - objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/propmapped debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d8/487b609bc39af999b479e5874feb41e6ad941f.debug - chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d8/487b609bc39af999b479e5874feb41e6ad941f.debug - chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d8/487b609bc39af999b479e5874feb41e6ad941f.debug - strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/propmapped - objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d8/487b609bc39af999b479e5874feb41e6ad941f.debug debian/subread/usr/lib/subread/propmapped install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/5f objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/subread-fullscan debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/5f/2da268224a823b64bacacdf9e30e8781a7b8bb.debug chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/5f/2da268224a823b64bacacdf9e30e8781a7b8bb.debug chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/5f/2da268224a823b64bacacdf9e30e8781a7b8bb.debug strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/subread-fullscan objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/5f/2da268224a823b64bacacdf9e30e8781a7b8bb.debug debian/subread/usr/lib/subread/subread-fullscan + install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d8 + objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/propmapped debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d8/487b609bc39af999b479e5874feb41e6ad941f.debug + chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d8/487b609bc39af999b479e5874feb41e6ad941f.debug + chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d8/487b609bc39af999b479e5874feb41e6ad941f.debug + strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/propmapped + objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d8/487b609bc39af999b479e5874feb41e6ad941f.debug debian/subread/usr/lib/subread/propmapped + install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64 + objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/qualityScores debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/aaae05e80c6b9b7e4656673e2f157b1161f566.debug + chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/aaae05e80c6b9b7e4656673e2f157b1161f566.debug + chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/aaae05e80c6b9b7e4656673e2f157b1161f566.debug + strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/qualityScores + objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/aaae05e80c6b9b7e4656673e2f157b1161f566.debug debian/subread/usr/lib/subread/qualityScores + install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/90 + objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/flattenGTF debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/90/65e54218796377640836605ca96ffa79f291b0.debug + chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/90/65e54218796377640836605ca96ffa79f291b0.debug + chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/90/65e54218796377640836605ca96ffa79f291b0.debug + strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/flattenGTF + objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/90/65e54218796377640836605ca96ffa79f291b0.debug debian/subread/usr/lib/subread/flattenGTF install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/fd objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/repair debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/fd/614a9fb2acffd68398379cc0537a5f927f8b93.debug chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/fd/614a9fb2acffd68398379cc0537a5f927f8b93.debug @@ -1832,65 +1888,53 @@ chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/e3/33f25d3c4f49f5bb851742c970f0d4ff3e0de4.debug strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/removeDup objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/e3/33f25d3c4f49f5bb851742c970f0d4ff3e0de4.debug debian/subread/usr/lib/subread/removeDup - install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/90 - objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/flattenGTF debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/90/65e54218796377640836605ca96ffa79f291b0.debug - chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/90/65e54218796377640836605ca96ffa79f291b0.debug - chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/90/65e54218796377640836605ca96ffa79f291b0.debug - strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/flattenGTF - objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/90/65e54218796377640836605ca96ffa79f291b0.debug debian/subread/usr/lib/subread/flattenGTF - install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64 - objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/qualityScores debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/aaae05e80c6b9b7e4656673e2f157b1161f566.debug - chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/aaae05e80c6b9b7e4656673e2f157b1161f566.debug - chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/aaae05e80c6b9b7e4656673e2f157b1161f566.debug - strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/qualityScores - objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/aaae05e80c6b9b7e4656673e2f157b1161f566.debug debian/subread/usr/lib/subread/qualityScores objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/txUnique debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/4834cd629ee3c3bbe45341bed8dd4005226b85.debug chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/4834cd629ee3c3bbe45341bed8dd4005226b85.debug chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/4834cd629ee3c3bbe45341bed8dd4005226b85.debug strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/txUnique objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/4834cd629ee3c3bbe45341bed8dd4005226b85.debug debian/subread/usr/lib/subread/txUnique - install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ea - objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/featureCounts debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ea/f37dea243ce0986a81fa2b3eaec654de581f01.debug - chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ea/f37dea243ce0986a81fa2b3eaec654de581f01.debug - chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ea/f37dea243ce0986a81fa2b3eaec654de581f01.debug - strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/featureCounts - objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ea/f37dea243ce0986a81fa2b3eaec654de581f01.debug debian/subread/usr/bin/featureCounts - install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f2 - objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subread-align debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f2/cbfb32665460ac93f1610bea05de2b64fe7bb1.debug - chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f2/cbfb32665460ac93f1610bea05de2b64fe7bb1.debug - chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f2/cbfb32665460ac93f1610bea05de2b64fe7bb1.debug - strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/subread-align - objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f2/cbfb32665460ac93f1610bea05de2b64fe7bb1.debug debian/subread/usr/bin/subread-align - install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ed - objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subread-buildindex debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ed/54b41a8b714d13f9d3902c313a4d234d20430f.debug - chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ed/54b41a8b714d13f9d3902c313a4d234d20430f.debug - chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ed/54b41a8b714d13f9d3902c313a4d234d20430f.debug - strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/subread-buildindex - objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ed/54b41a8b714d13f9d3902c313a4d234d20430f.debug debian/subread/usr/bin/subread-buildindex - install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/2b - objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/exactSNP debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/2b/e9e88045e0301f83d1c4105404ae1edd41346b.debug - chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/2b/e9e88045e0301f83d1c4105404ae1edd41346b.debug - chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/2b/e9e88045e0301f83d1c4105404ae1edd41346b.debug - strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/exactSNP - objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/2b/e9e88045e0301f83d1c4105404ae1edd41346b.debug debian/subread/usr/bin/exactSNP install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/87 objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subjunc debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/87/6bd7262c68696fc416f977f38d5d6ac7fbfcdb.debug chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/87/6bd7262c68696fc416f977f38d5d6ac7fbfcdb.debug chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/87/6bd7262c68696fc416f977f38d5d6ac7fbfcdb.debug strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/subjunc objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/87/6bd7262c68696fc416f977f38d5d6ac7fbfcdb.debug debian/subread/usr/bin/subjunc + install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/2b + objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/exactSNP debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/2b/e9e88045e0301f83d1c4105404ae1edd41346b.debug + chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/2b/e9e88045e0301f83d1c4105404ae1edd41346b.debug + chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/2b/e9e88045e0301f83d1c4105404ae1edd41346b.debug + strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/exactSNP + objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/2b/e9e88045e0301f83d1c4105404ae1edd41346b.debug debian/subread/usr/bin/exactSNP + install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ea + objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/featureCounts debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ea/f37dea243ce0986a81fa2b3eaec654de581f01.debug + chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ea/f37dea243ce0986a81fa2b3eaec654de581f01.debug + chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ea/f37dea243ce0986a81fa2b3eaec654de581f01.debug + strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/featureCounts + objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ea/f37dea243ce0986a81fa2b3eaec654de581f01.debug debian/subread/usr/bin/featureCounts install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f8 objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/sublong debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f8/71083f2e5192d4f966ba90af27b532ba56a376.debug chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f8/71083f2e5192d4f966ba90af27b532ba56a376.debug chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f8/71083f2e5192d4f966ba90af27b532ba56a376.debug strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/sublong objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f8/71083f2e5192d4f966ba90af27b532ba56a376.debug debian/subread/usr/bin/sublong + install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f2 + objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subread-align debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f2/cbfb32665460ac93f1610bea05de2b64fe7bb1.debug + chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f2/cbfb32665460ac93f1610bea05de2b64fe7bb1.debug + chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f2/cbfb32665460ac93f1610bea05de2b64fe7bb1.debug + strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/subread-align + objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/f2/cbfb32665460ac93f1610bea05de2b64fe7bb1.debug debian/subread/usr/bin/subread-align install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/b9 objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subindel debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/b9/eeb3d5a3e685ea253754a66fb0291cb45274ff.debug chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/b9/eeb3d5a3e685ea253754a66fb0291cb45274ff.debug chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/b9/eeb3d5a3e685ea253754a66fb0291cb45274ff.debug strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/subindel objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/b9/eeb3d5a3e685ea253754a66fb0291cb45274ff.debug debian/subread/usr/bin/subindel + install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ed + objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subread-buildindex debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ed/54b41a8b714d13f9d3902c313a4d234d20430f.debug + chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ed/54b41a8b714d13f9d3902c313a4d234d20430f.debug + chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ed/54b41a8b714d13f9d3902c313a4d234d20430f.debug + strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/subread-buildindex + objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ed/54b41a8b714d13f9d3902c313a4d234d20430f.debug debian/subread/usr/bin/subread-buildindex install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/subread/usr/lib/debug/.dwz/i386-linux-gnu debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/subread/usr/lib/debug/.dwz @@ -1902,7 +1946,7 @@ rm -f debian/subread-data/DEBIAN/shlibs dh_shlibdeps install -d debian/subread/DEBIAN - dpkg-shlibdeps -Tdebian/subread.substvars debian/subread/usr/lib/subread/propmapped debian/subread/usr/lib/subread/subread-fullscan debian/subread/usr/lib/subread/repair debian/subread/usr/lib/subread/removeDup debian/subread/usr/lib/subread/flattenGTF debian/subread/usr/lib/subread/qualityScores debian/subread/usr/lib/subread/txUnique debian/subread/usr/bin/featureCounts debian/subread/usr/bin/subread-align debian/subread/usr/bin/subread-buildindex debian/subread/usr/bin/exactSNP debian/subread/usr/bin/subjunc debian/subread/usr/bin/sublong debian/subread/usr/bin/subindel + dpkg-shlibdeps -Tdebian/subread.substvars debian/subread/usr/lib/subread/subread-fullscan debian/subread/usr/lib/subread/propmapped debian/subread/usr/lib/subread/qualityScores debian/subread/usr/lib/subread/flattenGTF debian/subread/usr/lib/subread/repair debian/subread/usr/lib/subread/removeDup debian/subread/usr/lib/subread/txUnique debian/subread/usr/bin/subjunc debian/subread/usr/bin/exactSNP debian/subread/usr/bin/featureCounts debian/subread/usr/bin/sublong debian/subread/usr/bin/subread-align debian/subread/usr/bin/subindel debian/subread/usr/bin/subread-buildindex dh_installdeb install -d debian/subread-data/DEBIAN dh_gencontrol @@ -1927,16 +1971,16 @@ chmod 0644 -- debian/subread/DEBIAN/md5sums chown 0:0 -- debian/subread/DEBIAN/md5sums cd debian/.debhelper/subread/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums - chmod 0644 -- debian/subread-data/DEBIAN/md5sums - chown 0:0 -- debian/subread-data/DEBIAN/md5sums chmod 0644 -- debian/.debhelper/subread/dbgsym-root/DEBIAN/md5sums chown 0:0 -- debian/.debhelper/subread/dbgsym-root/DEBIAN/md5sums + chmod 0644 -- debian/subread-data/DEBIAN/md5sums + chown 0:0 -- debian/subread-data/DEBIAN/md5sums dh_builddeb dpkg-deb --build debian/subread .. dpkg-deb --build debian/.debhelper/subread/dbgsym-root .. dpkg-deb --build debian/subread-data .. -dpkg-deb: building package 'subread-dbgsym' in '../subread-dbgsym_1.6.3+dfsg-1_i386.deb'. dpkg-deb: building package 'subread' in '../subread_1.6.3+dfsg-1_i386.deb'. +dpkg-deb: building package 'subread-dbgsym' in '../subread-dbgsym_1.6.3+dfsg-1_i386.deb'. dpkg-deb: building package 'subread-data' in '../subread-data_1.6.3+dfsg-1_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../subread_1.6.3+dfsg-1_i386.changes @@ -1944,12 +1988,14 @@ dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration +I: user script /srv/workspace/pbuilder/58080/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/58080/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/2544 and its subdirectories -I: Current time: Sun Aug 30 16:07:57 -12 2020 -I: pbuilder-time-stamp: 1598846877 +I: removing directory /srv/workspace/pbuilder/58080 and its subdirectories +I: Current time: Mon Oct 4 00:33:01 +14 2021 +I: pbuilder-time-stamp: 1633257181