Diff of the two buildlogs: -- --- b1/build.log 2025-11-05 09:52:36.558030025 +0000 +++ b2/build.log 2025-11-05 09:53:26.498086077 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Dec 8 04:13:04 -12 2026 -I: pbuilder-time-stamp: 1796746384 +I: Current time: Wed Nov 5 23:52:37 +14 2025 +I: pbuilder-time-stamp: 1762336357 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -30,53 +30,85 @@ dpkg-source: info: applying implicit-function.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3207583/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/318146/tmp/hooks/D01_modify_environment starting +debug: Running on ionos11-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Nov 5 09:52 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/318146/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/318146/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='forky' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="3" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.3.3(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 nocheck' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='26c35814731d43819f13bd3b37951800' - 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='3207583' - PS1='# ' - PS2='> ' + INVOCATION_ID=f53a830ee97f4f059d1353dc72101311 + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=318146 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.h7pT2UOW/pbuilderrc_WsvD --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.h7pT2UOW/b1 --logfile b1/build.log microbiomeutil_20101212+dfsg1-6.dsc' - SUDO_GID='111' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.h7pT2UOW/pbuilderrc_PIzz --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.h7pT2UOW/b2 --logfile b2/build.log microbiomeutil_20101212+dfsg1-6.dsc' + SUDO_GID=111 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos15-amd64 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3207583/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/318146/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -176,7 +208,7 @@ Get: 56 http://deb.debian.org/debian forky/main amd64 ncbi-data all 6.1.20170106+dfsg2-6 [3541 kB] Get: 57 http://deb.debian.org/debian forky/main amd64 ncbi-blast+ amd64 2.17.0+ds-6 [17.0 MB] Get: 58 http://deb.debian.org/debian forky/main amd64 ncbi-blast+-legacy all 2.17.0+ds-6 [13.3 kB] -Fetched 41.0 MB in 1s (76.2 MB/s) +Fetched 41.0 MB in 4s (9219 kB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19862 files and directories currently installed.) @@ -384,8 +416,8 @@ Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Tue Dec 8 16:13:52 UTC 2026. -Universal Time is now: Tue Dec 8 16:13:52 UTC 2026. +Local time is now: Wed Nov 5 09:53:05 UTC 2025. +Universal Time is now: Wed Nov 5 09:53:05 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1) ... @@ -436,7 +468,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/microbiomeutil-20101212+dfsg1/ && 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 > ../microbiomeutil_20101212+dfsg1-6_source.changes +I: user script /srv/workspace/pbuilder/318146/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/318146/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/microbiomeutil-20101212+dfsg1/ && 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 > ../microbiomeutil_20101212+dfsg1-6_source.changes dpkg-buildpackage: info: source package microbiomeutil dpkg-buildpackage: info: source version 20101212+dfsg1-6 dpkg-buildpackage: info: source distribution unstable @@ -448,7 +484,7 @@ debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1' dh_auto_clean - make -j42 clean + make -j40 clean make[2]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1' X=`pwd`; \ for i in NAST-iEr ChimeraSlayer WigeoN RESOURCES; \ @@ -497,7 +533,7 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1' dh_auto_build - make -j42 INSTALL="install --strip-program=true" + make -j40 INSTALL="install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1' X=`pwd`; \ for i in NAST-iEr ChimeraSlayer WigeoN RESOURCES; \ @@ -524,256 +560,19 @@ formatdb -p F -i RESOURCES/rRNA16S.gold.fasta 2>/dev/null -Building a new DB, current time: 12/08/2026 04:13:59 +Building a new DB, current time: 11/05/2025 23:53:10 New DB name: /build/reproducible-path/microbiomeutil-20101212+dfsg1/RESOURCES/rRNA16S.gold.fasta New DB title: RESOURCES/rRNA16S.gold.fasta Sequence type: Nucleotide Keep MBits: T Maximum file size: 3000000000B -Adding sequences from FASTA; added 5181 sequences in 0.222314 seconds. +Adding sequences from FASTA; added 5181 sequences in 0.225028 seconds. cdbfasta -C RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta 5181 entries from file RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta were indexed in file RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta.cidx make[1]: Leaving directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1' - debian/rules override_dh_auto_test -make[1]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1' -dh_auto_test - make -j42 test -make[2]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1' -cd NAST-iEr; make test -cd WigeoN; make test -cd ChimeraSlayer; make test -make[3]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/NAST-iEr' -cd ./sample_data; make test -make[3]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/WigeoN' -cd ./sample_data; make test -make[3]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer' -cd ./sample_data; make test -make[4]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/NAST-iEr/sample_data' -# -make[4]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/WigeoN/sample_data' -# -make[4]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/sample_data' -# -#*************** TESTING NAST-iEr *********************** -#************* TESTING WigeoN ********************" -# -# -#********** TESTING Chimera Slayer *************" -./runMe.sh -./testForUtils.pl -# -./runMe.sh -./runMe.sh - - -query to NAST format -../NAST-iEr template_seqs.NAST query_seq.fasta > tmp.query.NAST - - -Can't locate Fasta_reader.pm in @INC (you may need to install the Fasta_reader module) (@INC entries checked: /usr/lib/WigeoN/PerlLib /etc/perl /usr/local/lib/x86_64-linux-gnu/perl/5.40.1 /usr/local/share/perl/5.40.1 /usr/lib/x86_64-linux-gnu/perl5/5.40 /usr/share/perl5 /usr/lib/x86_64-linux-gnu/perl-base /usr/lib/x86_64-linux-gnu/perl/5.40 /usr/share/perl/5.40 /usr/local/lib/site_perl) at ../run_WigeoN.pl line 13. -BEGIN failed--compilation aborted at ../run_WigeoN.pl line 13. -make[4]: Leaving directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/WigeoN/sample_data' -make[3]: Leaving directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/WigeoN' -CMD: ../../ChimeraSlayer/ChimeraParentSelector/run_chimeraParentSelector.pl --query_NAST chims.NAST --db_NAST ../../RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta --db_FASTA ../../RESOURCES/rRNA16S.gold.fasta -n 15 -P 90 -R 1.007 > chims.NAST.CPS -query and template (profile) to query NAST and template consensus NAST -../NAST-iEr -b template_seqs.NAST query_seq.fasta > tmp.both.NAST - - -converting NAST mfasta to multi-alignment output highlighting differences -../show_malign_no_gap.pl --IGNOREGAPS tmp.both.NAST > tmp.both.NAST.malign - - -Run via the megablast wrapper -Num template seqs to align to: 2 -Alignment parameters: -MATCH: 5 -MISMATCH: -4 -GAP: -4 - -Highest score: 11681 -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.3250629.query --db_NAST /tmp/tmp.3250629.db -R 1.007 -make[4]: Leaving directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/NAST-iEr/sample_data' -make[3]: Leaving directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/NAST-iEr' - T(1)=1 s -ChimeraParentSelector(chmraD24_7000004128191580_1-4580:4581-7682_S000428666) took 1 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.3250629.query --db_NAST /tmp/tmp.3250629.db -R 1.007 - T(1)=1 s -ChimeraParentSelector(chmraD19_S000378387_1-5075:5076-7682_S000016146) took 1 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.3250629.query --db_NAST /tmp/tmp.3250629.db -R 1.007 - T(1)=1 s -ChimeraParentSelector(chmraD12_7000004131500344_1-4694:4695-7682_S000127669) took 1 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.3250629.query --db_NAST /tmp/tmp.3250629.db -R 1.007 - T(1)=1 s -ChimeraParentSelector(chmraD13_S000004801_1-4690:4691-7682_S000437365) took 1 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.3250629.query --db_NAST /tmp/tmp.3250629.db -R 1.007 - T(1)=0 s -ChimeraParentSelector(chmraD9_S000437007_1-4525:4526-7682_S000437299) took 0 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.3250629.query --db_NAST /tmp/tmp.3250629.db -R 1.007 - T(1)=1 s -ChimeraParentSelector(chmraD17_S000414109_1-4650:4651-7682_S000253432) took 1 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.3250629.query --db_NAST /tmp/tmp.3250629.db -R 1.007 - T(1)=1 s -ChimeraParentSelector(chmraD22_7000004131502379_1-4625:4626-7682_7000004128198963) took 1 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.3250629.query --db_NAST /tmp/tmp.3250629.db -R 1.007 - T(1)=0 s -ChimeraParentSelector(chmraD8_S000004272_1-3794:3795-7682_S000503167) took 0 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.3250629.query --db_NAST /tmp/tmp.3250629.db -R 1.007 - T(1)=1 s -ChimeraParentSelector(chmraD11_S000436014_1-5755:5756-7682_7000004128189973) took 1 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.3250629.query --db_NAST /tmp/tmp.3250629.db -R 1.007 - T(1)=1 s -ChimeraParentSelector(chmraD23_S000009720_1-5056:5057-7682_S000437236) took 1 seconds -CMD: ../../ChimeraSlayer/ChimeraParentSelector/CPS_to_RENAST.pl --CPS_output chims.NAST.CPS --query_NAST chims.NAST --db_NAST ../../RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta > chims.NAST.CPS_RENAST -processing: ChimeraParentSelector chmraD24_7000004128191580_1-4580:4581-7682_S000428666 YES 100.00[(7000004128191580, NAST:164-4593, ECO:36-940, RawLen:876, G:90.90, L:100.00, 1.100);(S000428666, NAST:4594-6747, ECO:940-1470, RawLen:531, G:84.36, L:100.00, 1.185)] -10 entries from file chims.NAST were indexed in file chims.NAST.cidx -Alignment parameters: -MATCH: 5 -MISMATCH: -4 -GAP: -4 - -Highest score: 10945 -processing: ChimeraParentSelector chmraD19_S000378387_1-5075:5076-7682_S000016146 YES 100.00[(S000378387, NAST:443-5077, ECO:94-1125, RawLen:1041, G:96.08, L:100.00, 1.041);(S000016146, NAST:5079-6498, ECO:1126-1424, RawLen:301, G:85.08, L:100.00, 1.175)] -Alignment parameters: -MATCH: 5 -MISMATCH: -4 -GAP: -4 - -Highest score: 12151 -processing: ChimeraParentSelector chmraD12_7000004131500344_1-4694:4695-7682_S000127669 YES 100.00[(7000004131500344, NAST:426-4710, ECO:86-999, RawLen:914, G:96.38, L:100.00, 1.038);(S000127669, NAST:4711-6711, ECO:999-1451, RawLen:453, G:92.52, L:100.00, 1.081)] -Alignment parameters: -MATCH: 5 -MISMATCH: -4 -GAP: -4 - -Highest score: 12852 -processing: ChimeraParentSelector chmraD13_S000004801_1-4690:4691-7682_S000437365 YES 100.00[(S000004801, NAST:455-4707, ECO:101-997, RawLen:913, G:96.34, L:100.00, 1.038);(S000437365, NAST:4708-6424, ECO:997-1382, RawLen:391, G:90.85, L:100.00, 1.101)] -Alignment parameters: -MATCH: 5 -MISMATCH: -4 -GAP: -4 - -Highest score: 12579 -processing: ChimeraParentSelector chmraD9_S000437007_1-4525:4526-7682_S000437299 YES 100.00[(S000437007, NAST:164-4657, ECO:36-982, RawLen:903, G:96.21, L:100.00, 1.039);(S000437299, NAST:4658-6422, ECO:983-1380, RawLen:401, G:94.45, L:100.00, 1.059)] -Alignment parameters: -MATCH: 5 -MISMATCH: -4 -GAP: -4 - -Highest score: 13167 -processing: ChimeraParentSelector chmraD17_S000414109_1-4650:4651-7682_S000253432 YES 100.00[(S000414109, NAST:153-4671, ECO:31-990, RawLen:907, G:94.16, L:100.00, 1.062);(S000253432, NAST:4673-6716, ECO:991-1453, RawLen:462, G:88.62, L:100.00, 1.128)] -Alignment parameters: -MATCH: 5 -MISMATCH: -4 -GAP: -4 - -Highest score: 11650 -processing: ChimeraParentSelector chmraD22_7000004131502379_1-4625:4626-7682_7000004128198963 YES 100.00[(7000004131502379, NAST:489-4623, ECO:115-959, RawLen:851, G:92.66, L:100.00, 1.079);(7000004128198963, NAST:4625-6422, ECO:961-1380, RawLen:422, G:84.94, L:100.00, 1.177)] -Alignment parameters: -MATCH: 5 -MISMATCH: -4 -GAP: -4 - -Highest score: 11807 -processing: ChimeraParentSelector chmraD8_S000004272_1-3794:3795-7682_S000503167 YES 100.00[(S000004272, NAST:162-3829, ECO:35-701, RawLen:668, G:95.64, L:100.00, 1.046);(S000503167, NAST:3831-6464, ECO:702-1405, RawLen:705, G:95.81, L:100.00, 1.044)] -Alignment parameters: -MATCH: 5 -MISMATCH: -4 -GAP: -4 - -Highest score: 13234 -processing: ChimeraParentSelector chmraD11_S000436014_1-5755:5756-7682_7000004128189973 YES 100.00[(S000436014, NAST:428-5920, ECO:88-1237, RawLen:1122, G:97.80, L:100.00, 1.022);(7000004128189973, NAST:5921-6521, ECO:1238-1435, RawLen:200, G:91.75, L:100.00, 1.090)] -Alignment parameters: -MATCH: 5 -MISMATCH: -4 -GAP: -4 - -Highest score: 12609 -processing: ChimeraParentSelector chmraD23_S000009720_1-5056:5057-7682_S000437236 YES 100.00[(S000009720, NAST:184-5057, ECO:47-1116, RawLen:1079, G:96.18, L:100.00, 1.040);(S000437236, NAST:5058-6474, ECO:1117-1411, RawLen:296, G:81.53, L:100.00, 1.227)] -Alignment parameters: -MATCH: 5 -MISMATCH: -4 -GAP: -4 - -Highest score: 11227 -CMD: ../../ChimeraSlayer/ChimeraPhyloChecker/CPS_to_CPC.pl --CPS_output chims.NAST.CPS --query_NAST chims.NAST.CPS_RENAST --db_NAST ../../RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta -P 90 -R 1.007 --minBS 90 --printAlignments > chims.NAST.CPS.CPC -10 entries from file chims.NAST.CPS_RENAST were indexed in file chims.NAST.CPS_RENAST.cidx -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.3269295.query --db_NAST /tmp/tmp.3269295.db -P 90 -R 1.007 --minBS 90 --printAlignments - examined parents (7000004128191580, S000428666) or (0, 1) took 2 seconds -ChimeraSlayer(chmraD24_7000004128191580_1-4580:4581-7682_S000428666) took 6 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.3269295.query --db_NAST /tmp/tmp.3269295.db -P 90 -R 1.007 --minBS 90 --printAlignments - examined parents (S000378387, S000016146) or (0, 1) took 3 seconds -ChimeraSlayer(chmraD19_S000378387_1-5075:5076-7682_S000016146) took 6 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.3269295.query --db_NAST /tmp/tmp.3269295.db -P 90 -R 1.007 --minBS 90 --printAlignments - examined parents (7000004131500344, S000127669) or (0, 1) took 4 seconds -ChimeraSlayer(chmraD12_7000004131500344_1-4694:4695-7682_S000127669) took 6 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.3269295.query --db_NAST /tmp/tmp.3269295.db -P 90 -R 1.007 --minBS 90 --printAlignments - examined parents (S000004801, S000437365) or (0, 1) took 2 seconds -ChimeraSlayer(chmraD13_S000004801_1-4690:4691-7682_S000437365) took 5 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.3269295.query --db_NAST /tmp/tmp.3269295.db -P 90 -R 1.007 --minBS 90 --printAlignments - examined parents (S000437007, S000437299) or (0, 1) took 2 seconds -ChimeraSlayer(chmraD9_S000437007_1-4525:4526-7682_S000437299) took 4 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.3269295.query --db_NAST /tmp/tmp.3269295.db -P 90 -R 1.007 --minBS 90 --printAlignments - examined parents (S000414109, S000253432) or (0, 1) took 2 seconds -ChimeraSlayer(chmraD17_S000414109_1-4650:4651-7682_S000253432) took 5 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.3269295.query --db_NAST /tmp/tmp.3269295.db -P 90 -R 1.007 --minBS 90 --printAlignments - examined parents (7000004131502379, 7000004128198963) or (0, 1) took 3 seconds -ChimeraSlayer(chmraD22_7000004131502379_1-4625:4626-7682_7000004128198963) took 8 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.3269295.query --db_NAST /tmp/tmp.3269295.db -P 90 -R 1.007 --minBS 90 --printAlignments - examined parents (S000503167, S000004272) or (0, 1) took 2 seconds -ChimeraSlayer(chmraD8_S000004272_1-3794:3795-7682_S000503167) took 3 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.3269295.query --db_NAST /tmp/tmp.3269295.db -P 90 -R 1.007 --minBS 90 --printAlignments - examined parents (S000436014, 7000004128189973) or (0, 1) took 2 seconds -ChimeraSlayer(chmraD11_S000436014_1-5755:5756-7682_7000004128189973) took 3 seconds -/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.3269295.query --db_NAST /tmp/tmp.3269295.db -P 90 -R 1.007 --minBS 90 --printAlignments - examined parents (S000009720, S000437236) or (0, 1) took 3 seconds -ChimeraSlayer(chmraD23_S000009720_1-5056:5057-7682_S000437236) took 6 seconds -CMD: ../../ChimeraSlayer/util/CS_add_taxonomy.pl < chims.NAST.CPS.CPC > chims.NAST.CPS.CPC.wTaxons -CMD: ../../ChimeraSlayer/ChimeraParentSelector/CPC_to_CPS.pl --CPC_output chims.NAST.CPS.CPC --query_NAST chims.NAST.CPS_RENAST --db_NAST ../../RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta > chims.NAST.CPS.CPC.align - T(1)=0 s -ChimeraParentSelector(chmraD24_7000004128191580_1-4580:4581-7682_S000428666) took 0 seconds - T(1)=0 s -ChimeraParentSelector(chmraD19_S000378387_1-5075:5076-7682_S000016146) took 0 seconds - T(1)=0 s -ChimeraParentSelector(chmraD12_7000004131500344_1-4694:4695-7682_S000127669) took 0 seconds - T(1)=0 s -ChimeraParentSelector(chmraD13_S000004801_1-4690:4691-7682_S000437365) took 0 seconds - T(1)=0 s -ChimeraParentSelector(chmraD9_S000437007_1-4525:4526-7682_S000437299) took 0 seconds - T(1)=0 s -ChimeraParentSelector(chmraD17_S000414109_1-4650:4651-7682_S000253432) took 0 seconds - T(1)=0 s -ChimeraParentSelector(chmraD22_7000004131502379_1-4625:4626-7682_7000004128198963) took 0 seconds - T(1)=0 s -ChimeraParentSelector(chmraD8_S000004272_1-3794:3795-7682_S000503167) took 0 seconds - T(1)=0 s -ChimeraParentSelector(chmraD11_S000436014_1-5755:5756-7682_7000004128189973) took 0 seconds - T(1)=0 s -ChimeraParentSelector(chmraD23_S000009720_1-5056:5057-7682_S000437236) took 0 seconds -make[4]: Leaving directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/sample_data' -make[3]: Leaving directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer' -make[2]: Leaving directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1' -cd /build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/sample_data && /usr/bin/make clean -make[2]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/sample_data' -rm -f chims.NAST.* -rm -f sample_DB.NAST.cidx -rm -f sample_DB.fasta.* -rm -f tmp.* -rm -f formatdb.log -make[2]: Leaving directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/ChimeraSlayer/sample_data' -cd /build/reproducible-path/microbiomeutil-20101212+dfsg1/NAST-iEr/sample_data && /usr/bin/make clean -make[2]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/NAST-iEr/sample_data' -rm -f tmp.* -make[2]: Leaving directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/NAST-iEr/sample_data' -cd /build/reproducible-path/microbiomeutil-20101212+dfsg1/WigeoN/sample_data && /usr/bin/make clean -make[2]: Entering directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/WigeoN/sample_data' -rm -f tmp.* -rm -f chims.NAST.* -make[2]: Leaving directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1/WigeoN/sample_data' -rm -f RESOURCES/rRNA16S.gold.fasta.n* RESOURCES/*.cidx -rm -f formatdb.log -make[1]: Leaving directory '/build/reproducible-path/microbiomeutil-20101212+dfsg1' +dh: command-omitted: The call to "debian/rules override_dh_auto_test" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install @@ -817,16 +616,16 @@ dh_shlibdeps -a dh_installdeb dh_gencontrol -dpkg-gencontrol: warning: package microbiomeutil-data: substitution variable ${perl:Depends} unused, but is defined -dpkg-gencontrol: warning: package nast-ier: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package chimeraslayer: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package wigeon: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package nast-ier: substitution variable ${perl:Depends} unused, but is defined +dpkg-gencontrol: warning: package microbiomeutil-data: substitution variable ${perl:Depends} unused, but is defined +dpkg-gencontrol: warning: package nast-ier: substitution variable ${perl:Depends} unused, but is defined dh_md5sums dh_builddeb dpkg-deb: building package 'microbiomeutil' in '../microbiomeutil_20101212+dfsg1-6_all.deb'. -dpkg-deb: building package 'chimeraslayer' in '../chimeraslayer_20101212+dfsg1-6_all.deb'. dpkg-deb: building package 'nast-ier' in '../nast-ier_20101212+dfsg1-6_amd64.deb'. +dpkg-deb: building package 'chimeraslayer' in '../chimeraslayer_20101212+dfsg1-6_all.deb'. dpkg-deb: building package 'nast-ier-dbgsym' in '../nast-ier-dbgsym_20101212+dfsg1-6_amd64.deb'. dpkg-deb: building package 'wigeon' in '../wigeon_20101212+dfsg1-6_all.deb'. dpkg-deb: building package 'microbiomeutil-data' in '../microbiomeutil-data_20101212+dfsg1-6_all.deb'. @@ -837,12 +636,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/318146/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/318146/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/3207583 and its subdirectories -I: Current time: Tue Dec 8 04:15:35 -12 2026 -I: pbuilder-time-stamp: 1796746535 +I: removing directory /srv/workspace/pbuilder/318146 and its subdirectories +I: Current time: Wed Nov 5 23:53:26 +14 2025 +I: pbuilder-time-stamp: 1762336406