origdir = ../tarballs /home/sw/bin/buildPackage: line 17: .svn/deb-layout: No such file or directory Complete layout information: buildArea=/sw/debian-med/trunk/packages/tab2mage/build-area origDir=/sw/debian-med/trunk/packages/tab2mage/tarballs tagsDir=/sw/debian-med/trunk/packages/tab2mage/tags tagsUrl=svn://svn.debian.org/svn/debian-med/trunk/packages/tab2mage/tags trunkDir=/sw/debian-med/trunk/packages/tab2mage/trunk trunkUrl=svn://svn.debian.org/svn/debian-med/trunk/packages/tab2mage/trunk UNRELEASED tag found - you don't want to release with it, do you? /sw/debian-med/trunk/packages/tab2mage/build-area/tab2mage-20080626 exists, removing it, as requested mergeWithUpstream mode detected, looking for /sw/debian-med/trunk/packages/tab2mage/tarballs/tab2mage_20080626.orig.tar.gz I: mergeWithUpstream property set, looking for upstream source tarball... tar --no-same-owner --no-same-permissions --extract --gzip --file /sw/debian-med/trunk/packages/tab2mage/tarballs/Tab2MAGE-20080626.tar.gz --directory <1 more argument> mv /sw/debian-med/trunk/packages/tab2mage/build-area/tmp-0.0194380926705016/Tab2MAGE-20080626 /sw/debian-med/trunk/packages/tab2mage/build-area/tab2mage-20080626 mkdir -p /sw/debian-med/trunk/packages/tab2mage/build-area/tab2mage-20080626/debian/patches /sw/debian-med/trunk/packages/tab2mage/build-area/tab2mage-20080626/debian cp --parents -laf debian/tab2mage-default.ex debian/patches/add-binaries-to-make-install.patch debian/copyright debian/dirs debian/README.Debian debian/rules <12 more arguments> rm -rf /sw/debian-med/trunk/packages/tab2mage/build-area/tmp-0.0194380926705016 chmod -R u+r+w+X,g+r-w+X,o+r-w+X -- /sw/debian-med/trunk/packages/tab2mage/build-area/tab2mage-20080626 /bin/sh -c pdebuild --buildresult /sw/packages/build-area -- --basetgz /var/cache/pbuilder/base-sid-amd64.tgz --architecture amd64 --distribution sid W: /home/sw/.pbuilderrc does not exist dpkg-buildpackage: source package tab2mage dpkg-buildpackage: source version 20080626-1 dpkg-buildpackage: source changed by David Paleino dpkg-source --before-build tab2mage-20080626 fakeroot debian/rules clean /usr/share/cdbs/1/class/perlmodule.mk:31: WARNING: perlmodule.mk is deprecated - please use perl-makemaker.mk instead /usr/share/cdbs/1/class/perlmodule-vars.mk:30: WARNING: perlmodule-vars.mk is deprecated - please use perl-makemaker-vars.mk instead test -x debian/rules dh_testroot rm -f debian/stamp-makefile-build debian/stamp-makefile-install /usr/bin/make -C . OPTIMIZE="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" -k distclean make[1]: Entering directory `/sw/debian-med/trunk/packages/tab2mage/build-area/tab2mage-20080626' make[1]: *** No rule to make target `distclean'. make[1]: Leaving directory `/sw/debian-med/trunk/packages/tab2mage/build-area/tab2mage-20080626' make: [makefile-clean] Error 2 (ignored) rm -f debian/stamp-makefile-check /usr/bin/make -f debian/rules reverse-config make[1]: Entering directory `/sw/debian-med/trunk/packages/tab2mage/build-area/tab2mage-20080626' /usr/share/cdbs/1/class/perlmodule.mk:31: WARNING: perlmodule.mk is deprecated - please use perl-makemaker.mk instead /usr/share/cdbs/1/class/perlmodule-vars.mk:30: WARNING: perlmodule-vars.mk is deprecated - please use perl-makemaker-vars.mk instead make[1]: Nothing to be done for `reverse-config'. make[1]: Leaving directory `/sw/debian-med/trunk/packages/tab2mage/build-area/tab2mage-20080626' if [ -d "." ]; then \ cd . && QUILT_PATCHES=/sw/debian-med/trunk/packages/tab2mage/build-area/tab2mage-20080626/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \ fi No patch removed rm -rf ./.pc rm -f debian/stamp-patch* dh_clean dpkg-source -b tab2mage-20080626 dpkg-source: warning: no source format specified in debian/source/format, see dpkg-source(1) dpkg-source: info: using source format `1.0' dpkg-source: info: building tab2mage using existing tab2mage_20080626.orig.tar.gz dpkg-source: info: building tab2mage in tab2mage_20080626-1.diff.gz dpkg-source: info: building tab2mage in tab2mage_20080626-1.dsc dpkg-genchanges -S >../tab2mage_20080626-1_source.changes dpkg-genchanges: including full source code in upload dpkg-source --after-build tab2mage-20080626 dpkg-buildpackage: source only upload (original source is included) W: /home/sw/.pbuilderrc does not exist I: using fakeroot in build. I: Current time: Wed Mar 27 09:46:26 CET 2013 I: pbuilder-time-stamp: 1364373986 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/base-sid-amd64.tgz] I: creating local configuration I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /run/shm filesystem I: mounting /dev/pts filesystem I: policy-rc.d already exists I: Obtaining the cached apt archive contents I: Installing the build-deps -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: cdbs, quilt, debhelper (>= 8) dpkg-deb: building package `pbuilder-satisfydepends-dummy' in `/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 12010 files and directories currently installed.) Unpacking pbuilder-satisfydepends-dummy (from .../pbuilder-satisfydepends-dummy.deb) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on cdbs; however: Package cdbs is not installed. pbuilder-satisfydepends-dummy depends on quilt; however: Package quilt is not installed. pbuilder-satisfydepends-dummy depends on debhelper (>= 8); however: Package debhelper is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... The following NEW packages will be installed: bsdmainutils{a} cdbs{a} debhelper{a} diffstat{a} file{a} gettext{a} gettext-base{a} groff-base{a} html2text{a} intltool-debian{a} libasprintf-dev{a} libasprintf0c2{a} libcroco3{a} libffi5{a} libgettextpo-dev{a} libgettextpo0{a} libglib2.0-0{a} libmagic1{a} libpcre3{a} libpipeline1{a} libunistring0{a} libxml2{a} man-db{a} po-debconf{a} quilt{a} 0 packages upgraded, 25 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/9634 kB of archives. After unpacking 27.2 MB will be used. Writing extended state information... debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpipeline1:amd64. (Reading database ... 12010 files and directories currently installed.) Unpacking libpipeline1:amd64 (from .../libpipeline1_1.2.2-2_amd64.deb) ... Selecting previously unselected package groff-base. Unpacking groff-base (from .../groff-base_1.22.2-1_amd64.deb) ... Selecting previously unselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_9.0.4_amd64.deb) ... Selecting previously unselected package man-db. Unpacking man-db (from .../man-db_2.6.3-3_amd64.deb) ... Selecting previously unselected package libasprintf0c2:amd64. Unpacking libasprintf0c2:amd64 (from .../libasprintf0c2_0.18.1.1-10_amd64.deb) ... Selecting previously unselected package libmagic1:amd64. Unpacking libmagic1:amd64 (from .../libmagic1_1%3a5.11-2.1_amd64.deb) ... Selecting previously unselected package libpcre3:amd64. Unpacking libpcre3:amd64 (from .../libpcre3_1%3a8.31-2_amd64.deb) ... Selecting previously unselected package libxml2:amd64. Unpacking libxml2:amd64 (from .../libxml2_2.8.0+dfsg1-7+nmu1_amd64.deb) ... Selecting previously unselected package libffi5:amd64. Unpacking libffi5:amd64 (from .../libffi5_3.0.10-3_amd64.deb) ... Selecting previously unselected package libglib2.0-0:amd64. Unpacking libglib2.0-0:amd64 (from .../libglib2.0-0_2.33.12+really2.32.4-5_amd64.deb) ... Selecting previously unselected package libcroco3:amd64. Unpacking libcroco3:amd64 (from .../libcroco3_0.6.6-2_amd64.deb) ... Selecting previously unselected package libunistring0:amd64. Unpacking libunistring0:amd64 (from .../libunistring0_0.9.3-5_amd64.deb) ... Selecting previously unselected package libgettextpo0:amd64. Unpacking libgettextpo0:amd64 (from .../libgettextpo0_0.18.1.1-10_amd64.deb) ... Selecting previously unselected package file. Unpacking file (from .../file_1%3a5.11-2.1_amd64.deb) ... Selecting previously unselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.18.1.1-10_amd64.deb) ... Selecting previously unselected package cdbs. Unpacking cdbs (from .../archives/cdbs_0.4.120_all.deb) ... Selecting previously unselected package html2text. Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ... Selecting previously unselected package libasprintf-dev:amd64. Unpacking libasprintf-dev:amd64 (from .../libasprintf-dev_0.18.1.1-10_amd64.deb) ... Selecting previously unselected package libgettextpo-dev:amd64. Unpacking libgettextpo-dev:amd64 (from .../libgettextpo-dev_0.18.1.1-10_amd64.deb) ... Selecting previously unselected package gettext. Unpacking gettext (from .../gettext_0.18.1.1-10_amd64.deb) ... Selecting previously unselected package intltool-debian. Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ... Selecting previously unselected package po-debconf. Unpacking po-debconf (from .../po-debconf_1.0.16+nmu2_all.deb) ... Selecting previously unselected package debhelper. Unpacking debhelper (from .../debhelper_9.20120909_all.deb) ... Selecting previously unselected package diffstat. Unpacking diffstat (from .../diffstat_1.55-3_amd64.deb) ... Selecting previously unselected package quilt. Unpacking quilt (from .../archives/quilt_0.60-8_all.deb) ... Setting up libpipeline1:amd64 (1.2.2-2) ... Setting up groff-base (1.22.2-1) ... Setting up bsdmainutils (9.0.4) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up man-db (2.6.3-3) ... Building database of manual pages ... Setting up libasprintf0c2:amd64 (0.18.1.1-10) ... Setting up libmagic1:amd64 (1:5.11-2.1) ... Setting up libpcre3:amd64 (1:8.31-2) ... Setting up libxml2:amd64 (2.8.0+dfsg1-7+nmu1) ... Setting up libffi5:amd64 (3.0.10-3) ... Setting up libglib2.0-0:amd64 (2.33.12+really2.32.4-5) ... No schema files found: doing nothing. Setting up libcroco3:amd64 (0.6.6-2) ... Setting up libunistring0:amd64 (0.9.3-5) ... Setting up libgettextpo0:amd64 (0.18.1.1-10) ... Setting up file (1:5.11-2.1) ... Setting up gettext-base (0.18.1.1-10) ... Setting up cdbs (0.4.120) ... Setting up html2text (1.3.2a-15) ... Setting up libasprintf-dev:amd64 (0.18.1.1-10) ... Setting up libgettextpo-dev:amd64 (0.18.1.1-10) ... Setting up gettext (0.18.1.1-10) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2) ... Setting up debhelper (9.20120909) ... Setting up diffstat (1.55-3) ... Setting up quilt (0.60-8) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: fakeroot debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/109 kB of archives. After this operation, 325 kB of additional disk space will be used. Selecting previously unselected package fakeroot. (Reading database ... 13558 files and directories currently installed.) Unpacking fakeroot (from .../fakeroot_1.18.4-2_amd64.deb) ... Processing triggers for man-db ... Setting up fakeroot (1.18.4-2) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode I: Copying back the cached apt archive contents I: Copying source file I: copying [../tab2mage_20080626-1.dsc] I: copying [../tab2mage_20080626.orig.tar.gz] I: copying [../tab2mage_20080626-1.diff.gz] I: Extracting source dpkg-source: warning: extracting unsigned source package (tab2mage_20080626-1.dsc) dpkg-source: info: extracting tab2mage in tab2mage-20080626 dpkg-source: info: unpacking tab2mage_20080626.orig.tar.gz dpkg-source: info: applying tab2mage_20080626-1.diff.gz I: Building the package I: Running cd tmp/buildd/*/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin" dpkg-buildpackage -us -uc -rfakeroot dpkg-buildpackage: source package tab2mage dpkg-buildpackage: source version 20080626-1 dpkg-buildpackage: source changed by David Paleino dpkg-source --before-build tab2mage-20080626 dpkg-buildpackage: host architecture amd64 fakeroot debian/rules clean /usr/share/cdbs/1/class/perlmodule.mk:31: WARNING: perlmodule.mk is deprecated - please use perl-makemaker.mk instead /usr/share/cdbs/1/class/perlmodule-vars.mk:30: WARNING: perlmodule-vars.mk is deprecated - please use perl-makemaker-vars.mk instead test -x debian/rules dh_testroot rm -f debian/stamp-makefile-build debian/stamp-makefile-install /usr/bin/make -C . OPTIMIZE="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" -k distclean make[1]: Entering directory `/tmp/buildd/tab2mage-20080626' make[1]: *** No rule to make target `distclean'. make[1]: Leaving directory `/tmp/buildd/tab2mage-20080626' make: [makefile-clean] Error 2 (ignored) rm -f debian/stamp-makefile-check /usr/bin/make -f debian/rules reverse-config make[1]: Entering directory `/tmp/buildd/tab2mage-20080626' /usr/share/cdbs/1/class/perlmodule.mk:31: WARNING: perlmodule.mk is deprecated - please use perl-makemaker.mk instead /usr/share/cdbs/1/class/perlmodule-vars.mk:30: WARNING: perlmodule-vars.mk is deprecated - please use perl-makemaker-vars.mk instead make[1]: Nothing to be done for `reverse-config'. make[1]: Leaving directory `/tmp/buildd/tab2mage-20080626' if [ -d "." ]; then \ cd . && QUILT_PATCHES=/tmp/buildd/tab2mage-20080626/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \ fi No patch removed rm -rf ./.pc rm -f debian/stamp-patch* dh_clean dpkg-source -b tab2mage-20080626 dpkg-source: warning: no source format specified in debian/source/format, see dpkg-source(1) dpkg-source: info: using source format `1.0' dpkg-source: info: building tab2mage using existing tab2mage_20080626.orig.tar.gz dpkg-source: info: building tab2mage in tab2mage_20080626-1.diff.gz dpkg-source: info: building tab2mage in tab2mage_20080626-1.dsc debian/rules build /usr/share/cdbs/1/class/perlmodule.mk:31: WARNING: perlmodule.mk is deprecated - please use perl-makemaker.mk instead /usr/share/cdbs/1/class/perlmodule-vars.mk:30: WARNING: perlmodule-vars.mk is deprecated - please use perl-makemaker-vars.mk instead test -x debian/rules mkdir -p "." /usr/bin/make -f debian/rules reverse-config make[1]: Entering directory `/tmp/buildd/tab2mage-20080626' /usr/share/cdbs/1/class/perlmodule.mk:31: WARNING: perlmodule.mk is deprecated - please use perl-makemaker.mk instead /usr/share/cdbs/1/class/perlmodule-vars.mk:30: WARNING: perlmodule-vars.mk is deprecated - please use perl-makemaker-vars.mk instead make[1]: Nothing to be done for `reverse-config'. make[1]: Leaving directory `/tmp/buildd/tab2mage-20080626' cd . && QUILT_PATCHES=/tmp/buildd/tab2mage-20080626/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2 Applying patch add-binaries-to-make-install.patch patching file Makefile.PL Now at patch add-binaries-to-make-install.patch touch debian/stamp-patched /usr/bin/make -f debian/rules update-config make[1]: Entering directory `/tmp/buildd/tab2mage-20080626' /usr/share/cdbs/1/class/perlmodule.mk:31: WARNING: perlmodule.mk is deprecated - please use perl-makemaker.mk instead /usr/share/cdbs/1/class/perlmodule-vars.mk:30: WARNING: perlmodule-vars.mk is deprecated - please use perl-makemaker-vars.mk instead make[1]: Nothing to be done for `update-config'. make[1]: Leaving directory `/tmp/buildd/tab2mage-20080626' (cd . && /usr/bin/perl Makefile.PL INSTALLDIRS=vendor ) Warning: prerequisite Bio::MAGE 20030502.3 not found. Warning: prerequisite Bio::MAGE::XML::Writer 20060815 not found. Warning: prerequisite Class::Std 0.0.8 not found. Warning: prerequisite Config::YAML 1.42 not found. Warning: prerequisite DBD::mysql 2.1017 not found. Warning: prerequisite DBI 1.48 not found. Warning: prerequisite LWP::UserAgent 2.031 not found. Warning: prerequisite List::MoreUtils 0.17 not found. Warning: prerequisite Parse::RecDescent 1.94 not found. Warning: prerequisite Readonly 1.03 not found. Warning: prerequisite Text::CSV_XS 0.28 not found. Warning: prerequisite Tie::IxHash 1.21 not found. Checking if your kit is complete... Looks good Writing Makefile for Tab2MAGE Writing MYMETA.yml /usr/bin/make -C . OPTIMIZE="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" all make[1]: Entering directory `/tmp/buildd/tab2mage-20080626' cp lib/ArrayExpress/Curator/ExperimentChecker.pm blib/lib/ArrayExpress/Curator/ExperimentChecker.pm cp lib/ArrayExpress/Datafile/Affymetrix/Calvin/Generic.pm blib/lib/ArrayExpress/Datafile/Affymetrix/Calvin/Generic.pm cp lib/ArrayExpress/MAGETAB/TabFile.pm blib/lib/ArrayExpress/MAGETAB/TabFile.pm cp lib/ArrayExpress/ArrayMAGE/BioSequence.pm blib/lib/ArrayExpress/ArrayMAGE/BioSequence.pm cp lib/ArrayExpress/AutoSubmission/Daemon/MXChecker.pm blib/lib/ArrayExpress/AutoSubmission/Daemon/MXChecker.pm cp lib/ArrayExpress/AutoSubmission/Daemon/T2MExporter.pm blib/lib/ArrayExpress/AutoSubmission/Daemon/T2MExporter.pm cp lib/ArrayExpress/AutoSubmission/DB/Event.pm blib/lib/ArrayExpress/AutoSubmission/DB/Event.pm cp lib/ArrayExpress/Curator/MAGE/Definitions.pm blib/lib/ArrayExpress/Curator/MAGE/Definitions.pm cp lib/ArrayExpress/AutoSubmission/templates/_display_annotation.html blib/lib/ArrayExpress/AutoSubmission/templates/_display_annotation.html cp lib/ArrayExpress/ArrayMAGE/Reporter.pm blib/lib/ArrayExpress/ArrayMAGE/Reporter.pm cp lib/ArrayExpress/Datafile/Affymetrix/CDF/XDA_CDF.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CDF/XDA_CDF.pm cp lib/ArrayExpress/AutoSubmission/DB/Design.pm blib/lib/ArrayExpress/AutoSubmission/DB/Design.pm cp lib/ArrayExpress/Datafile/Affymetrix/CDF.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CDF.pm cp lib/ArrayExpress/ArrayMAGE/CompositeSequence.pm blib/lib/ArrayExpress/ArrayMAGE/CompositeSequence.pm cp lib/ArrayExpress/ArrayMAGE/FeatureReporterMap.pm blib/lib/ArrayExpress/ArrayMAGE/FeatureReporterMap.pm cp lib/ArrayExpress/Datafile/QT_list.pm blib/lib/ArrayExpress/Datafile/QT_list.pm cp lib/ArrayExpress/Curator/MAGE.pm blib/lib/ArrayExpress/Curator/MAGE.pm cp lib/ArrayExpress/Datafile/Affymetrix/Parser.pm blib/lib/ArrayExpress/Datafile/Affymetrix/Parser.pm cp lib/ArrayExpress/ArrayMAGE.pm blib/lib/ArrayExpress/ArrayMAGE.pm cp lib/ArrayExpress/Datafile/Affymetrix/EXPFactory.pm blib/lib/ArrayExpress/Datafile/Affymetrix/EXPFactory.pm cp lib/ArrayExpress/AutoSubmission/templates/intro.html blib/lib/ArrayExpress/AutoSubmission/templates/intro.html cp lib/ArrayExpress/Datafile/Affymetrix/Calvin/CHP.pm blib/lib/ArrayExpress/Datafile/Affymetrix/Calvin/CHP.pm cp lib/ArrayExpress/AutoSubmission/DB/ExperimentLoadedData.pm blib/lib/ArrayExpress/AutoSubmission/DB/ExperimentLoadedData.pm cp lib/ArrayExpress/Datafile/Affymetrix/Calvin/Component.pm blib/lib/ArrayExpress/Datafile/Affymetrix/Calvin/Component.pm cp lib/ArrayExpress/AutoSubmission/templates/submitted.html blib/lib/ArrayExpress/AutoSubmission/templates/submitted.html cp lib/ArrayExpress/MAGETAB/DataMatrix.pm blib/lib/ArrayExpress/MAGETAB/DataMatrix.pm cp lib/ArrayExpress/AutoSubmission/DB/OrganismInstance.pm blib/lib/ArrayExpress/AutoSubmission/DB/OrganismInstance.pm cp lib/ArrayExpress/AutoSubmission/templates/error.html blib/lib/ArrayExpress/AutoSubmission/templates/error.html cp lib/ArrayExpress/AutoSubmission/templates/magetab_intro.html blib/lib/ArrayExpress/AutoSubmission/templates/magetab_intro.html cp lib/ArrayExpress/AutoSubmission/templates/logout.html blib/lib/ArrayExpress/AutoSubmission/templates/logout.html cp lib/ArrayExpress/Curator/Common.pm blib/lib/ArrayExpress/Curator/Common.pm cp lib/ArrayExpress/Curator/Config.yml blib/lib/ArrayExpress/Curator/Config.yml cp lib/ArrayExpress/AutoSubmission/DB/Accessionable.pm blib/lib/ArrayExpress/AutoSubmission/DB/Accessionable.pm cp lib/ArrayExpress/Datafile/Affymetrix/Calvin/CEL.pm blib/lib/ArrayExpress/Datafile/Affymetrix/Calvin/CEL.pm cp lib/ArrayExpress/Tracking/QueryHandler.pm blib/lib/ArrayExpress/Tracking/QueryHandler.pm cp lib/ArrayExpress/Datafile/DataMatrix.pm blib/lib/ArrayExpress/Datafile/DataMatrix.pm cp lib/ArrayExpress/MAGETAB/Checker/IDF.pm blib/lib/ArrayExpress/MAGETAB/Checker/IDF.pm cp lib/ArrayExpress/AutoSubmission/templates/email_subs_confirmation.txt blib/lib/ArrayExpress/AutoSubmission/templates/email_subs_confirmation.txt cp lib/ArrayExpress/Datafile/Affymetrix/CELFactory.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CELFactory.pm cp lib/ArrayExpress/AutoSubmission/Daemon/MAGETABChecker.pm blib/lib/ArrayExpress/AutoSubmission/Daemon/MAGETABChecker.pm cp lib/ArrayExpress/AutoSubmission/templates/magetab_upload.html blib/lib/ArrayExpress/AutoSubmission/templates/magetab_upload.html cp lib/ArrayExpress/AutoSubmission/templates/magetab_template.html blib/lib/ArrayExpress/AutoSubmission/templates/magetab_template.html cp lib/ArrayExpress/MAGETAB/IDF.pm blib/lib/ArrayExpress/MAGETAB/IDF.pm cp lib/ArrayExpress/Datafile.pm blib/lib/ArrayExpress/Datafile.pm cp lib/ArrayExpress/AutoSubmission/templates/_annotate.html blib/lib/ArrayExpress/AutoSubmission/templates/_annotate.html cp lib/ArrayExpress/Datafile/Affymetrix/CHP/CHPv8.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CHP/CHPv8.pm cp lib/ArrayExpress/Curator/Entrez_list.txt blib/lib/ArrayExpress/Curator/Entrez_list.txt cp lib/ArrayExpress/ArrayMAGE/ReporterCompositeMap.pm blib/lib/ArrayExpress/ArrayMAGE/ReporterCompositeMap.pm cp lib/ArrayExpress/Datafile/Affymetrix/EXP.pm blib/lib/ArrayExpress/Datafile/Affymetrix/EXP.pm cp lib/ArrayExpress/AutoSubmission/templates/delete.html blib/lib/ArrayExpress/AutoSubmission/templates/delete.html cp lib/ArrayExpress/Datafile/Affymetrix/CEL/CELv3.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CEL/CELv3.pm cp lib/ArrayExpress/AutoSubmission/DB/QualityMetric.pm blib/lib/ArrayExpress/AutoSubmission/DB/QualityMetric.pm cp lib/ArrayExpress/Datafile/Affymetrix/CHP.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CHP.pm cp lib/ArrayExpress/AutoSubmission/DB/Experiment.pm blib/lib/ArrayExpress/AutoSubmission/DB/Experiment.pm cp lib/ArrayExpress/AutoSubmission/templates/_head.html blib/lib/ArrayExpress/AutoSubmission/templates/_head.html cp lib/ArrayExpress/AutoSubmission/templates/file_upload.html blib/lib/ArrayExpress/AutoSubmission/templates/file_upload.html cp lib/ArrayExpress/Datafile/Binary.pm blib/lib/ArrayExpress/Datafile/Binary.pm cp lib/ArrayExpress/AutoSubmission/Daemon/T2MChecker.pm blib/lib/ArrayExpress/AutoSubmission/Daemon/T2MChecker.pm cp lib/ArrayExpress/AutoSubmission/templates/update.html blib/lib/ArrayExpress/AutoSubmission/templates/update.html cp lib/ArrayExpress/AutoSubmission/DB/CategoryMaterial.pm blib/lib/ArrayExpress/AutoSubmission/DB/CategoryMaterial.pm cp lib/ArrayExpress/Curator/Logger.pm blib/lib/ArrayExpress/Curator/Logger.pm cp lib/ArrayExpress/AutoSubmission/DB/Role.pm blib/lib/ArrayExpress/AutoSubmission/DB/Role.pm cp lib/ArrayExpress/AutoSubmission/DB/Taxon.pm blib/lib/ArrayExpress/AutoSubmission/DB/Taxon.pm cp lib/ArrayExpress/AutoSubmission/DB/ExperimentFactor.pm blib/lib/ArrayExpress/AutoSubmission/DB/ExperimentFactor.pm cp lib/ArrayExpress/AutoSubmission/DB/Protocol.pm blib/lib/ArrayExpress/AutoSubmission/DB/Protocol.pm cp lib/ArrayExpress/MAGETAB/Checker.pm blib/lib/ArrayExpress/MAGETAB/Checker.pm cp lib/ArrayExpress/AutoSubmission/DB/Category.pm blib/lib/ArrayExpress/AutoSubmission/DB/Category.pm cp lib/ArrayExpress/AutoSubmission/templates/insert.html blib/lib/ArrayExpress/AutoSubmission/templates/insert.html cp lib/ArrayExpress/Datafile/Affymetrix/CHPFactory.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CHPFactory.pm cp lib/ArrayExpress/AutoSubmission/DB/Spreadsheet.pm blib/lib/ArrayExpress/AutoSubmission/DB/Spreadsheet.pm cp lib/ArrayExpress/AutoSubmission/DB/Material.pm blib/lib/ArrayExpress/AutoSubmission/DB/Material.pm cp lib/ArrayExpress/Curator/Tab2MAGE.pm blib/lib/ArrayExpress/Curator/Tab2MAGE.pm cp lib/ArrayExpress/AutoSubmission/DB/CategoryTaxon.pm blib/lib/ArrayExpress/AutoSubmission/DB/CategoryTaxon.pm cp lib/ArrayExpress/AutoSubmission/DB/MaterialInstance.pm blib/lib/ArrayExpress/AutoSubmission/DB/MaterialInstance.pm cp lib/ArrayExpress/AutoSubmission/templates/create.html blib/lib/ArrayExpress/AutoSubmission/templates/create.html cp lib/ArrayExpress/AutoSubmission/DB/QualityMetricInstance.pm blib/lib/ArrayExpress/AutoSubmission/DB/QualityMetricInstance.pm cp lib/ArrayExpress/AutoSubmission/Daemon/Checker.pm blib/lib/ArrayExpress/AutoSubmission/Daemon/Checker.pm cp lib/ArrayExpress/AutoSubmission/WebForm.pm blib/lib/ArrayExpress/AutoSubmission/WebForm.pm cp lib/ArrayExpress/AutoSubmission/templates/_foot.html blib/lib/ArrayExpress/AutoSubmission/templates/_foot.html cp lib/ArrayExpress/Datafile/Affymetrix/CEL.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CEL.pm cp lib/ArrayExpress/AutoSubmission/DB/Organism.pm blib/lib/ArrayExpress/AutoSubmission/DB/Organism.pm cp lib/ArrayExpress/Tracking/CelQC.pm blib/lib/ArrayExpress/Tracking/CelQC.pm cp lib/ArrayExpress/Datafile/Affymetrix/Calvin/Facade.pm blib/lib/ArrayExpress/Datafile/Affymetrix/Calvin/Facade.pm cp lib/ArrayExpress/ArrayMAGE/ArrayDesign.pm blib/lib/ArrayExpress/ArrayMAGE/ArrayDesign.pm cp lib/ArrayExpress/Curator/Validate.pm blib/lib/ArrayExpress/Curator/Validate.pm cp lib/ArrayExpress/Datafile/Affymetrix/Calvin/DataHeader.pm blib/lib/ArrayExpress/Datafile/Affymetrix/Calvin/DataHeader.pm cp lib/ArrayExpress/AutoSubmission/Daemon/Exporter.pm blib/lib/ArrayExpress/AutoSubmission/Daemon/Exporter.pm cp lib/ArrayExpress/Datafile/Affymetrix/CDF/GDAC_CDF.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CDF/GDAC_CDF.pm cp lib/ArrayExpress/AutoSubmission/DB/User.pm blib/lib/ArrayExpress/AutoSubmission/DB/User.pm cp lib/ArrayExpress/Datafile/Affymetrix.pm blib/lib/ArrayExpress/Datafile/Affymetrix.pm cp lib/ArrayExpress/AutoSubmission/DB/LoadedData.pm blib/lib/ArrayExpress/AutoSubmission/DB/LoadedData.pm cp lib/ArrayExpress/AutoSubmission/templates/edit.html blib/lib/ArrayExpress/AutoSubmission/templates/edit.html cp lib/ArrayExpress/Datafile/Parser.pm blib/lib/ArrayExpress/Datafile/Parser.pm cp lib/ArrayExpress/Curator/Standalone.pm blib/lib/ArrayExpress/Curator/Standalone.pm cp lib/ArrayExpress/AutoSubmission/templates/email_signup_confirmation.txt blib/lib/ArrayExpress/AutoSubmission/templates/email_signup_confirmation.txt cp lib/ArrayExpress/AutoSubmission/templates/choose.html blib/lib/ArrayExpress/AutoSubmission/templates/choose.html cp lib/ArrayExpress/AutoSubmission/DB.pm blib/lib/ArrayExpress/AutoSubmission/DB.pm cp lib/ArrayExpress/MAGETAB/SDRF.pm blib/lib/ArrayExpress/MAGETAB/SDRF.pm cp lib/ArrayExpress/Tracking/Event.pm blib/lib/ArrayExpress/Tracking/Event.pm cp lib/ArrayExpress/AutoSubmission/templates/upload.html blib/lib/ArrayExpress/AutoSubmission/templates/upload.html cp lib/ArrayExpress/AutoSubmission/DB/CategoryDesign.pm blib/lib/ArrayExpress/AutoSubmission/DB/CategoryDesign.pm cp lib/ArrayExpress/AutoSubmission/DB/DataFile.pm blib/lib/ArrayExpress/AutoSubmission/DB/DataFile.pm cp lib/ArrayExpress/Curator/MIAMExpress.pm blib/lib/ArrayExpress/Curator/MIAMExpress.pm cp lib/ArrayExpress/Datafile/QT_list.txt blib/lib/ArrayExpress/Datafile/QT_list.txt cp lib/ArrayExpress/AutoSubmission/DB/DataFormat.pm blib/lib/ArrayExpress/AutoSubmission/DB/DataFormat.pm cp lib/ArrayExpress/AutoSubmission/DB/File.pm blib/lib/ArrayExpress/AutoSubmission/DB/File.pm cp lib/ArrayExpress/Datafile/ArrayDesign.pm blib/lib/ArrayExpress/Datafile/ArrayDesign.pm cp lib/ArrayExpress/Datafile/Affymetrix/CHP/CHPv13.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CHP/CHPv13.pm cp lib/ArrayExpress/AutoSubmission/Creator.pm blib/lib/ArrayExpress/AutoSubmission/Creator.pm cp lib/ArrayExpress/AutoSubmission/DB/ArrayDesignExperiment.pm blib/lib/ArrayExpress/AutoSubmission/DB/ArrayDesignExperiment.pm cp lib/ArrayExpress/Datafile/Affymetrix/CHP/CHPv12.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CHP/CHPv12.pm cp lib/ArrayExpress/AutoSubmission/templates/login.html blib/lib/ArrayExpress/AutoSubmission/templates/login.html cp lib/ArrayExpress/AutoSubmission/DB/ExperimentQT.pm blib/lib/ArrayExpress/AutoSubmission/DB/ExperimentQT.pm cp lib/ArrayExpress/Curator/Visualize.pm blib/lib/ArrayExpress/Curator/Visualize.pm cp lib/ArrayExpress/AutoSubmission/DB/RoleUser.pm blib/lib/ArrayExpress/AutoSubmission/DB/RoleUser.pm cp lib/ArrayExpress/Datafile/Affymetrix/Calvin/DataSet.pm blib/lib/ArrayExpress/Datafile/Affymetrix/Calvin/DataSet.pm cp lib/ArrayExpress/Curator/Config.pm blib/lib/ArrayExpress/Curator/Config.pm cp lib/ArrayExpress/ArrayMAGE/ReporterGroup.pm blib/lib/ArrayExpress/ArrayMAGE/ReporterGroup.pm cp lib/ArrayExpress/Curator/Entrez_list.pm blib/lib/ArrayExpress/Curator/Entrez_list.pm cp lib/ArrayExpress/ArrayMAGE/ProgressBar.pm blib/lib/ArrayExpress/ArrayMAGE/ProgressBar.pm cp lib/ArrayExpress/AutoSubmission/DB/Platform.pm blib/lib/ArrayExpress/AutoSubmission/DB/Platform.pm cp lib/ArrayExpress/Curator/Report.pm blib/lib/ArrayExpress/Curator/Report.pm cp lib/ArrayExpress/AutoSubmission/templates/signup.html blib/lib/ArrayExpress/AutoSubmission/templates/signup.html cp lib/ArrayExpress/Datafile/Affymetrix/CEL/CELv4.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CEL/CELv4.pm cp lib/ArrayExpress/ArrayMAGE/Feature.pm blib/lib/ArrayExpress/ArrayMAGE/Feature.pm cp lib/ArrayExpress/AutoSubmission/templates/create_user.html blib/lib/ArrayExpress/AutoSubmission/templates/create_user.html cp lib/ArrayExpress/AutoSubmission/Daemon/MXExporter.pm blib/lib/ArrayExpress/AutoSubmission/Daemon/MXExporter.pm cp lib/ArrayExpress/AutoSubmission/Daemon/MAGETABExporter.pm blib/lib/ArrayExpress/AutoSubmission/Daemon/MAGETABExporter.pm cp lib/ArrayExpress/Datafile/Affymetrix/CHP/XDA_CHP.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CHP/XDA_CHP.pm cp lib/ArrayExpress/AutoSubmission/DB/QuantitationType.pm blib/lib/ArrayExpress/AutoSubmission/DB/QuantitationType.pm cp lib/ArrayExpress/ArrayMAGE/Database.pm blib/lib/ArrayExpress/ArrayMAGE/Database.pm cp lib/ArrayExpress/Datafile/Affymetrix/Calvin/Parameter.pm blib/lib/ArrayExpress/Datafile/Affymetrix/Calvin/Parameter.pm cp lib/ArrayExpress/MAGETAB.pm blib/lib/ArrayExpress/MAGETAB.pm cp lib/ArrayExpress/AutoSubmission/DB/ArrayDesign.pm blib/lib/ArrayExpress/AutoSubmission/DB/ArrayDesign.pm cp lib/ArrayExpress/ArrayMAGE/NullObject.pm blib/lib/ArrayExpress/ArrayMAGE/NullObject.pm cp lib/ArrayExpress/AutoSubmission/DB/PermissionRole.pm blib/lib/ArrayExpress/AutoSubmission/DB/PermissionRole.pm cp lib/ArrayExpress/AutoSubmission/DB/DesignInstance.pm blib/lib/ArrayExpress/AutoSubmission/DB/DesignInstance.pm cp lib/ArrayExpress/AutoSubmission/DB/Permission.pm blib/lib/ArrayExpress/AutoSubmission/DB/Permission.pm cp lib/ArrayExpress/AutoSubmission/DB/ArrayDesignOrganism.pm blib/lib/ArrayExpress/AutoSubmission/DB/ArrayDesignOrganism.pm cp lib/ArrayExpress/AutoSubmission/templates/subs_notify_curator.txt blib/lib/ArrayExpress/AutoSubmission/templates/subs_notify_curator.txt cp lib/ArrayExpress/Datafile/Affymetrix/Calvin/Binary.pm blib/lib/ArrayExpress/Datafile/Affymetrix/Calvin/Binary.pm cp lib/ArrayExpress/AutoSubmission/templates/template.html blib/lib/ArrayExpress/AutoSubmission/templates/template.html cp lib/ArrayExpress/AutoSubmission/DB/Factor.pm blib/lib/ArrayExpress/AutoSubmission/DB/Factor.pm cp lib/ArrayExpress/ArrayMAGE/Zone.pm blib/lib/ArrayExpress/ArrayMAGE/Zone.pm cp lib/ArrayExpress/Tracking/QCJobManager.pm blib/lib/ArrayExpress/Tracking/QCJobManager.pm cp lib/ArrayExpress/AutoSubmission/Spreadsheet.pm blib/lib/ArrayExpress/AutoSubmission/Spreadsheet.pm cp lib/ArrayExpress/Datafile/Affymetrix/Calvin/DataGroup.pm blib/lib/ArrayExpress/Datafile/Affymetrix/Calvin/DataGroup.pm cp lib/ArrayExpress/ArrayMAGE/CompositeGroup.pm blib/lib/ArrayExpress/ArrayMAGE/CompositeGroup.pm cp lib/ArrayExpress/Datafile/Affymetrix/CDFFactory.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CDFFactory.pm cp lib/ArrayExpress/AutoSubmission/Daemon.pm blib/lib/ArrayExpress/AutoSubmission/Daemon.pm cp lib/ArrayExpress/Datafile/Metrics.pm blib/lib/ArrayExpress/Datafile/Metrics.pm cp lib/ArrayExpress/Datafile/Affymetrix/CHP/GDAC_CHP.pm blib/lib/ArrayExpress/Datafile/Affymetrix/CHP/GDAC_CHP.pm cp lib/ArrayExpress/Datafile/Affymetrix/Calvin/DataColumn.pm blib/lib/ArrayExpress/Datafile/Affymetrix/Calvin/DataColumn.pm cp lib/ArrayExpress/Curator/Database.pm blib/lib/ArrayExpress/Curator/Database.pm cp lib/ArrayExpress/AutoSubmission/templates/_display.html blib/lib/ArrayExpress/AutoSubmission/templates/_display.html cp bin/t2m_visualize.pl blib/script/t2m_visualize.pl /usr/bin/perl -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/t2m_visualize.pl cp bin/tab2mage.pl blib/script/tab2mage.pl /usr/bin/perl -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/tab2mage.pl cp bin/parse_affy.pl blib/script/parse_affy.pl /usr/bin/perl -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/parse_affy.pl cp bin/convert_to_mcmr.pl blib/script/convert_to_mcmr.pl /usr/bin/perl -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/convert_to_mcmr.pl cp bin/magetab.pl blib/script/magetab.pl /usr/bin/perl -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/magetab.pl make[1]: *** No rule to make target `bin/mx_add_affy.pl', needed by `blib/script/mx_add_affy.pl'. Stop. make[1]: Leaving directory `/tmp/buildd/tab2mage-20080626' make: *** [debian/stamp-makefile-build] Error 2 dpkg-buildpackage: error: debian/rules build gave error exit status 2 E: Failed autobuilding of package I: unmounting dev/pts filesystem I: unmounting run/shm filesystem I: unmounting proc filesystem I: cleaning the build env I: removing directory /var/cache/pbuilder/build//19536 and its subdirectories build command failed in /sw/debian-med/trunk/packages/tab2mage/build-area/tab2mage-20080626 Aborting. W: build directory not purged!