Diff of the two buildlogs: -- --- b1/build.log 2024-10-09 05:07:40.736181659 +0000 +++ b2/build.log 2024-10-09 05:08:48.941284805 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Oct 8 17:05:51 -12 2024 -I: pbuilder-time-stamp: 1728450351 +I: Current time: Wed Nov 12 01:30:42 +14 2025 +I: pbuilder-time-stamp: 1762860642 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -30,54 +30,86 @@ dpkg-source: info: applying adjust-to-external-Chemistry-OpenSMILES.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/58675/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/11977/tmp/hooks/D01_modify_environment starting +debug: Running on ionos16-i386. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Nov 11 11:30 /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/11977/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/11977/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='i386' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=11 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='i386' + 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]="2" [2]="32" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") + BASH_VERSION='5.2.32(1)-release' + BUILDDIR=/build/reproducible-path + 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=21 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=i686 + HOST_ARCH=i386 IFS=' ' - INVOCATION_ID='e112e7e83efe49368e502032f43f5e70' - 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='58675' - PS1='# ' - PS2='> ' + INVOCATION_ID=53fd57cf95ad45b3968689050f975cad + 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=11977 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.FLUoncA2/pbuilderrc_9SBf --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.FLUoncA2/b1 --logfile b1/build.log smiles-scripts_0.2.0+dfsg1-6.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://46.16.76.132:3128' + 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.FLUoncA2/pbuilderrc_VyHP --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.FLUoncA2/b2 --logfile b2/build.log smiles-scripts_0.2.0+dfsg1-6.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://213.165.73.152:3128 I: uname -a - Linux ionos12-i386 6.1.0-26-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.112-1 (2024-09-30) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-26-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.112-1 (2024-09-30) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/58675/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/11977/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -520,7 +552,7 @@ Get: 359 http://deb.debian.org/debian trixie/main i386 libxml-libxml-perl i386 2.0207+dfsg+really+2.0134-5 [323 kB] Get: 360 http://deb.debian.org/debian trixie/main i386 mkdepend all 0.0~svn45-3 [7172 B] Get: 361 http://deb.debian.org/debian trixie/main i386 subversion i386 1.14.3-3 [968 kB] -Fetched 317 MB in 6s (53.2 MB/s) +Fetched 317 MB in 5s (58.5 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libapparmor1: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 ... 19774 files and directories currently installed.) @@ -2199,7 +2231,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/smiles-scripts-0.2.0+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 > ../smiles-scripts_0.2.0+dfsg1-6_source.changes +I: user script /srv/workspace/pbuilder/11977/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/11977/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/smiles-scripts-0.2.0+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 > ../smiles-scripts_0.2.0+dfsg1-6_source.changes dpkg-buildpackage: info: source package smiles-scripts dpkg-buildpackage: info: source version 0.2.0+dfsg1-6 dpkg-buildpackage: info: source distribution unstable @@ -2209,7 +2245,7 @@ debian/rules clean dh clean dh_auto_clean - make -j11 distclean + make -j21 distclean make[1]: Entering directory '/build/reproducible-path/smiles-scripts-0.2.0+dfsg1' find: 'externals': No such file or directory find: 'externals': No such file or directory @@ -2233,17 +2269,17 @@ rm -f externals/Graph-Nauty-*/Nauty.bs rm -f version.h rm -f src/lib/perl5/COD/ToolsVersion.pm scripts/cod-tools-version -rm -f externals/Graph-Nauty-*/Nauty.c +rm -f tests/outputs/junit/net/crystallography/vector/space/ChangeOfBasisTest.log tests/outputs/junit/net/crystallography/helpers/cdk/OrthogonaliseAtomCoordinatesTest.log rm -f scripts/.cod-tools-version.d +rm -f externals/Graph-Nauty-*/Nauty.c +rm -f externals/*/Build externals/*/MYMETA.* externals/[A-Z]*/Makefile externals/*/pm_to_blib rm -f src/Version.java -rm -f tests/outputs/junit/net/crystallography/helpers/cdk/OrthogonaliseAtomCoordinatesTest.log tests/outputs/junit/net/crystallography/vector/space/ChangeOfBasisTest.log -rm -f externals/Graph-Nauty-*/Nauty.o rm -f classes/Version.class -rm -f externals/*/Build externals/*/MYMETA.* externals/[A-Z]*/Makefile externals/*/pm_to_blib +rm -f externals/Graph-Nauty-*/Nauty.o rm -rf externals/*/_build -rm -f classes/net/crystallography/helpers/cdk/OrthogonaliseAtomCoordinates.class classes/net/crystallography/vector/space/ChangeOfBasis.class classes/CDKCif2SdfHelp.class classes/CDKCif2SmilesHelp.class classes/CDKCif2XyzHelp.class classes/CDKDepictHelp.class classes/CDKRechargeHelp.class classes/CDKSdf2SmilesHelp.class classes/EPSOutputOption.class classes/OutputOption.class classes/PDFOutputOption.class classes/SVGOutputOption.class classes/Version.class classes/VersionOption.class classes/cdkcif2sdf.class classes/cdkcif2smiles.class classes/cdkcif2xyz.class classes/cdkdepict.class classes/cdkrecharge.class classes/cdksdf2smiles.class +rm -f classes/net/crystallography/vector/space/ChangeOfBasis.class classes/net/crystallography/helpers/cdk/OrthogonaliseAtomCoordinates.class classes/CDKCif2SdfHelp.class classes/CDKCif2SmilesHelp.class classes/CDKCif2XyzHelp.class classes/CDKDepictHelp.class classes/CDKRechargeHelp.class classes/CDKSdf2SmilesHelp.class classes/EPSOutputOption.class classes/OutputOption.class classes/PDFOutputOption.class classes/SVGOutputOption.class classes/Version.class classes/VersionOption.class classes/cdkcif2sdf.class classes/cdkcif2smiles.class classes/cdkcif2xyz.class classes/cdkdepict.class classes/cdkrecharge.class classes/cdksdf2smiles.class rm -f jars/smiles-scripts-0.2.0.jar jars/smiles-scripts.jar -rm -f tests/junit/classes/net/crystallography/helpers/cdk/OrthogonaliseAtomCoordinatesTest.class tests/junit/classes/net/crystallography/vector/space/ChangeOfBasisTest.class +rm -f tests/junit/classes/net/crystallography/vector/space/ChangeOfBasisTest.class tests/junit/classes/net/crystallography/helpers/cdk/OrthogonaliseAtomCoordinatesTest.class rm -f .depend rm -rf tests/junit/classes/* classes/* tests/outputs/junit/* rm -rf externals/*/blib @@ -2259,7 +2295,7 @@ mkdir jars grep '^ ' MANIFEST.txt | sed 's/[\r ]//g' | xargs -i ln -s {} jars dh_auto_build -- MODULE_BUILD_PARSE_YAPP= CHEMISTRY_OPENSMILES= - make -j11 "INSTALL=install --strip-program=true" MODULE_BUILD_PARSE_YAPP= CHEMISTRY_OPENSMILES= + make -j21 "INSTALL=install --strip-program=true" MODULE_BUILD_PARSE_YAPP= CHEMISTRY_OPENSMILES= make[2]: Entering directory '/build/reproducible-path/smiles-scripts-0.2.0+dfsg1' find: 'externals': No such file or directory find: 'externals': No such file or directory @@ -2301,26 +2337,26 @@ find: 'externals': No such file or directory find: 'externals': No such file or directory find: 'externals': No such file or directory -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/net/crystallography/vector/space/ChangeOfBasis.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/Version.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/OutputOption.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/net/crystallography/helpers/cdk/OrthogonaliseAtomCoordinates.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/EPSOutputOption.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/PDFOutputOption.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/SVGOutputOption.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/VersionOption.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/CDKCif2SdfHelp.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/CDKCif2SmilesHelp.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/CDKCif2XyzHelp.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/CDKDepictHelp.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/CDKRechargeHelp.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/CDKSdf2SmilesHelp.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/cdkcif2smiles.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/cdkcif2sdf.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/cdkdepict.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/cdkrecharge.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/cdksdf2smiles.java -javac -cp classes:jars/freehep-graphics2d.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-depict.jar:jars/cdk-silent.jar:jars/freehep-graphicsbase.jar:jars/cdk-data.jar:jars/freehep-graphicsio.jar:jars/cdk-renderbasic.jar:jars/cdk-core.jar:jars/cdk-structgen.jar:jars/vecmath.jar:jars/cdk-interfaces.jar:jars/cdk-isomorphism.jar:jars/cdk-sdg.jar:jars/cdk-standard.jar:jars/beam-core.jar:jars/cdk-ctab.jar:jars/guava.jar:jars/cdk-renderawt.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/log4j-1.2.jar:jars/cdk-ioformats.jar:jars/cdk-io.jar:jars/cdk-render.jar:jars/cdk-smiles.jar:jars/smiles-scripts-0.2.0.jar -d classes src/cdkcif2xyz.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/net/crystallography/vector/space/ChangeOfBasis.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/Version.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/OutputOption.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/VersionOption.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/EPSOutputOption.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/PDFOutputOption.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/SVGOutputOption.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/net/crystallography/helpers/cdk/OrthogonaliseAtomCoordinates.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/CDKCif2SdfHelp.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/CDKCif2SmilesHelp.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/CDKCif2XyzHelp.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/CDKDepictHelp.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/CDKRechargeHelp.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/CDKSdf2SmilesHelp.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/cdkrecharge.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/cdkcif2sdf.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/cdkcif2smiles.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/cdkcif2xyz.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/cdksdf2smiles.java +javac -cp classes:jars/cdk-isomorphism.jar:jars/vecmath.jar:jars/cdk-core.jar:jars/cdk-ctab.jar:jars/freehep-graphicsio.jar:jars/freehep-graphicsio-pdf.jar:jars/cdk-structgen.jar:jars/cdk-renderawt.jar:jars/cdk-data.jar:jars/guava.jar:jars/cdk-silent.jar:jars/freehep-graphics2d.jar:jars/cdk-smiles.jar:jars/beam-core.jar:jars/log4j-1.2.jar:jars/cdk-sdg.jar:jars/cdk-renderbasic.jar:jars/freehep-graphicsio-ps.jar:jars/freehep-graphicsio-svg.jar:jars/soptions.jar:jars/cdk-ioformats.jar:jars/cdk-depict.jar:jars/freehep-graphicsbase.jar:jars/cdk-interfaces.jar:jars/cdk-standard.jar:jars/cdk-render.jar:jars/cdk-io.jar:jars/smiles-scripts-0.2.0.jar -d classes src/cdkdepict.java jar cfm jars/smiles-scripts-0.2.0.jar MANIFEST.txt -C classes . ln -sf smiles-scripts-0.2.0.jar jars/smiles-scripts.jar make[2]: Leaving directory '/build/reproducible-path/smiles-scripts-0.2.0+dfsg1' @@ -2350,7 +2386,7 @@ rm tests/cases/cml-to-smi_005.* rm tests/cases/sdf-to-smi_002.* dh_auto_test -- MODULE_BUILD_PARSE_YAPP= CHEMISTRY_OPENSMILES= - make -j11 test MODULE_BUILD_PARSE_YAPP= CHEMISTRY_OPENSMILES= + make -j21 test MODULE_BUILD_PARSE_YAPP= CHEMISTRY_OPENSMILES= make[2]: Entering directory '/build/reproducible-path/smiles-scripts-0.2.0+dfsg1' find: 'externals': No such file or directory find: 'externals': No such file or directory @@ -2370,76 +2406,66 @@ find: 'externals': No such file or directory find: 'externals': No such file or directory find: 'externals': No such file or directory -tests/cases/cdkcif2smiles_001.opt: tests/cases/cdkcif2xyz_001.opt: tests/cases/cdkdepict-cgi_002.sh: tests/cases/cdkdepict_002.inp: tests/cases/cdkdepict_003.opt: tests/cases/cdkdepict_021.opt: tests/cases/cdkrecharge_001.opt: tests/cases/cdkrecharge_002.sh: tests/cases/cdkrecharge_003.opt: tests/cases/cdkrecharge_004.opt: tests/cases/cdkrecharge_005.opt: OK -tests/cases/cdkrecharge_006.inp: OK -tests/cases/cdkrecharge_007.opt: OK -tests/cases/cdkrecharge_008.inp: OK -tests/cases/cdkrecharge_009.opt: OK -OK -tests/cases/cdkrecharge_010.opt: OK -tests/cases/cdkrecharge_011.opt: tests/cases/cdkrecharge_012.inp: OK -tests/cases/cdkrecharge_013.inp: OK -tests/cases/cdkrecharge_014.inp: OK -tests/cases/cdkrecharge_016.sh: OK +tests/cases/cdkcif2smiles_001.opt: tests/cases/cdkcif2xyz_001.opt: tests/cases/cdkdepict-cgi_002.sh: tests/cases/cdkdepict_002.inp: tests/cases/cdkdepict_003.opt: tests/cases/cdkdepict_021.opt: tests/cases/cdkrecharge_001.opt: tests/cases/cdkrecharge_002.sh: tests/cases/cdkrecharge_003.opt: tests/cases/cdkrecharge_004.opt: tests/cases/cdkrecharge_005.opt: tests/cases/cdkrecharge_006.inp: tests/cases/cdkrecharge_007.opt: tests/cases/cdkrecharge_008.inp: tests/cases/cdkrecharge_009.opt: tests/cases/cdkrecharge_010.opt: tests/cases/cdkrecharge_011.opt: tests/cases/cdkrecharge_012.inp: tests/cases/cdkrecharge_013.inp: tests/cases/cdkrecharge_014.inp: tests/cases/cdkrecharge_016.sh: OK tests/cases/cdkrecharge_017.sh: OK tests/cases/cdkrecharge_018.inp: OK -tests/cases/cdkrecharge_019.inp: OK -tests/cases/cdkrecharge_020.inp: OK -tests/cases/cdksdf2smiles_001.opt: OK OK -tests/cases/cdksdf2smiles_002.inp: tests/cases/cdksdf2smiles_003.inp: OK +tests/cases/cdkrecharge_019.inp: OK +tests/cases/cdkrecharge_020.inp: tests/cases/cdksdf2smiles_001.opt: OK +tests/cases/cdksdf2smiles_002.inp: OK +tests/cases/cdksdf2smiles_003.inp: OK tests/cases/cdksdf2smiles_004.inp: OK tests/cases/cdksdf2smiles_006.inp: OK -tests/cases/cdksdf2smiles_008.inp: OK -tests/cases/cml-to-smi_001.inp: OK OK +OK +OK +tests/cases/cdksdf2smiles_008.inp: tests/cases/cml-to-smi_001.inp: OK tests/cases/cml-to-smi_002.inp: OK -tests/cases/cml-to-smi_003.inp: tests/cases/cml-to-smi_004.inp: OK -tests/cases/cml-to-smi_006.inp: OK -tests/cases/cml-to-smi_007.inp: OK -tests/cases/cml-to-smi_008.inp: OK -tests/cases/cml-to-smi_009.inp: OK -tests/cases/sdf-to-smi_001.inp: OK +OK +tests/cases/cml-to-smi_003.inp: OK +OK +tests/cases/cml-to-smi_004.inp: OK +tests/cases/cml-to-smi_006.inp: tests/cases/cml-to-smi_007.inp: tests/cases/cml-to-smi_008.inp: tests/cases/cml-to-smi_009.inp: tests/cases/sdf-to-smi_001.inp: OK tests/cases/sdf-to-smi_003.inp: OK tests/cases/sdf-to-smi_004.inp: OK tests/cases/sdf-to-smi_005.inp: OK tests/cases/sdf-to-smi_006.inp: OK +tests/cases/sdf-to-smi_007.inp: OK +OK OK -tests/cases/sdf-to-smi_007.inp: tests/cases/sdf-to-smi_008.inp: OK +OK +tests/cases/sdf-to-smi_008.inp: OK tests/cases/sdf-to-smi_009.inp: OK tests/cases/sdf-to-smi_010.inp: OK +OK +OK +OK tests/cases/sdf-to-smi_011.inp: OK tests/cases/sdf-to-smi_012.inp: OK -tests/cases/sdf-to-smi_013.inp: OK -tests/cases/sdf-to-smi_014.inp: OK -tests/cases/sdf-to-smi_015.inp: OK -tests/cases/smi_canonicalise_001.inp: OK -tests/cases/smi_canonicalise_002.inp: OK +tests/cases/sdf-to-smi_013.inp: tests/cases/sdf-to-smi_014.inp: tests/cases/sdf-to-smi_015.inp: tests/cases/smi_canonicalise_001.inp: tests/cases/smi_canonicalise_002.inp: OK +OK tests/cases/smi_canonicalise_003.inp: OK -tests/cases/smi_canonicalise_004.inp: OK -tests/cases/smi_canonicalise_005.inp: OK -tests/cases/smi_canonicalise_006.inp: OK -tests/cases/smi_canonicalise_007.inp: OK OK -tests/cases/smi_canonicalise_008.inp: tests/cases/smi_canonicalise_009.inp: OK -tests/cases/smi_canonicalise_010.inp: OK +tests/cases/smi_canonicalise_004.inp: tests/cases/smi_canonicalise_005.inp: tests/cases/smi_canonicalise_006.inp: tests/cases/smi_canonicalise_007.inp: tests/cases/smi_canonicalise_008.inp: OK +OK +tests/cases/smi_canonicalise_009.inp: tests/cases/smi_canonicalise_010.inp: OK tests/cases/smi_canonicalise_011.inp: OK tests/cases/smi_canonicalise_012.inp: OK tests/cases/smi_canonicalise_013.inp: OK tests/cases/smi_canonicalise_014.inp: OK tests/cases/smi_canonicalise_015.inp: OK tests/cases/smi_canonicalise_016.inp: OK +OK tests/cases/smi_canonicalise_017.inp: OK -tests/cases/smi_canonicalise_018.inp: OK -tests/cases/smi_canonicalise_019.inp: OK +tests/cases/smi_canonicalise_018.inp: tests/cases/smi_canonicalise_019.inp: OK tests/cases/smi_canonicalise_020.inp: OK tests/cases/smi_canonicalise_021.inp: OK tests/cases/smi_canonicalise_022.inp: OK tests/cases/smi_canonicalise_023.inp: OK tests/cases/smi_canonicalise_024.inp: OK tests/cases/smi_canonicalise_025.inp: OK -tests/cases/smi_canonicalise_026.inp: OK -tests/cases/smi_canonicalise_027.inp: OK +OK +tests/cases/smi_canonicalise_026.inp: tests/cases/smi_canonicalise_027.inp: OK tests/cases/smi_canonicalise_028.inp: OK tests/cases/smi_canonicalise_029.inp: OK tests/cases/smi_isomorphism_001.sh: OK @@ -2454,12 +2480,12 @@ tests/cases/smi_isomorphism_010.sh: OK tests/cases/smi_isomorphism_011.sh: OK tests/cases/smi_isomorphism_012.sh: OK -tests/cases/smi_isomorphism_013.sh: OK -tests/cases/smi_isomorphism_014.sh: OK +OK +tests/cases/smi_isomorphism_013.sh: tests/cases/smi_isomorphism_014.sh: OK tests/cases/smi_isomorphism_015.sh: OK tests/cases/smi_isomorphism_016.sh: OK -tests/cases/smi_isomorphism_017.sh: OK -tests/cases/smi_isomorphism_018.sh: OK +OK +tests/cases/smi_isomorphism_017.sh: tests/cases/smi_isomorphism_018.sh: OK tests/cases/smi_isomorphism_019.sh: OK tests/cases/smi_isomorphism_020.sh: OK tests/cases/smi_isomorphism_021.sh: OK @@ -2489,6 +2515,16 @@ OK OK OK +OK +OK +OK +OK +OK +OK +OK +OK +OK +OK make[2]: Leaving directory '/build/reproducible-path/smiles-scripts-0.2.0+dfsg1' find tests/outputs -name '*.diff' -a -size +0 | xargs --no-run-if-empty -i echo FAILED: {} find tests/outputs -name '*.diff' -a -size +0 | xargs --no-run-if-empty false # Detect test failures @@ -2537,12 +2573,14 @@ 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/11977/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/11977/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/58675 and its subdirectories -I: Current time: Tue Oct 8 17:07:39 -12 2024 -I: pbuilder-time-stamp: 1728450459 +I: removing directory /srv/workspace/pbuilder/11977 and its subdirectories +I: Current time: Wed Nov 12 01:31:47 +14 2025 +I: pbuilder-time-stamp: 1762860707