------------------------------------------------------------------------------- -- Phase: Environment ------------------------------------------------------------------------------- NO_DEPENDS=1 UNAME_r=6.1 UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=unknown UNAME_s=DragonFly PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SSL_NO_VERIFY_PEER=1 LANG=C HOME=/root USER=root TERM=dumb SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: showconfig ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: CONFIGURE_ENV ------------------------------------------------------------------------------- ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/construction/biology/p5-Bio-MAGETAB XDG_CONFIG_HOME=/construction/biology/p5-Bio-MAGETAB HOME=/construction/biology/p5-Bio-MAGETAB TMPDIR="/tmp" PATH=/construction/biology/p5-Bio-MAGETAB/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 PERL_EXTUTILS_AUTOINSTALL="--skipdeps" PERL_MM_USE_DEFAULT="YES" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: CONFIGURE_ARGS ------------------------------------------------------------------------------- INSTALLDIRS="site" CC="cc" CCFLAGS="-pipe -O2 -fno-strict-aliasing " LD="cc" PREFIX="/usr/local" INSTALLPRIVLIB="/usr/local/lib" INSTALLARCHLIB="/usr/local/lib" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: MAKE_ENV ------------------------------------------------------------------------------- PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/construction/biology/p5-Bio-MAGETAB XDG_CONFIG_HOME=/construction/biology/p5-Bio-MAGETAB HOME=/construction/biology/p5-Bio-MAGETAB TMPDIR="/tmp" PATH=/construction/biology/p5-Bio-MAGETAB/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES CCVER=gcc80 PREFIX=/usr/local LOCALBASE=/usr/local NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" " LIBS="" CXX="c++" CXXFLAGS=" -pipe -O2 -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: MAKE_ARGS ------------------------------------------------------------------------------- DESTDIR=/construction/biology/p5-Bio-MAGETAB/stage SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: PLIST_SUB ------------------------------------------------------------------------------- OSREL=6.1 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PERL_VERSION=5.32.1 PERL_VER=5.32 PERL5_MAN1=lib/perl5/site_perl/man/man1 PERL5_MAN3=lib/perl5/site_perl/man/man3 SITE_PERL=lib/perl5/site_perl SITE_ARCH=lib/perl5/site_perl/mach/5.32 PROFILE="@comment " DOCSDIR="share/doc/Bio-MAGETAB" EXAMPLESDIR="share/examples/Bio-MAGETAB" DATADIR="share/Bio-MAGETAB" WWWDIR="www/Bio-MAGETAB" ETCDIR="etc/Bio-MAGETAB" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: SUB_LIST ------------------------------------------------------------------------------- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/Bio-MAGETAB DOCSDIR=/usr/local/share/doc/Bio-MAGETAB EXAMPLESDIR=/usr/local/share/examples/Bio-MAGETAB WWWDIR=/usr/local/www/Bio-MAGETAB ETCDIR=/usr/local/etc/Bio-MAGETAB SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: /etc/make.conf ------------------------------------------------------------------------------- DPORTS_BUILDER=yes DISABLE_LICENSES=yes DEFAULT_VERSIONS=ssl=openssl FORCE_PACKAGE=yes DEVELOPER=yes USE_PACKAGE_DEPENDS_ONLY=yes PORTSDIR=/xports PORT_DBDIR=/options PKG_DBDIR=/var/db/pkg PKG_CACHEDIR=/var/cache/pkg PKG_SUFX=.txz DEVELOPER=1 UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=600102 OSVERSION=9999999 OSREL=6.1 _OSRELEASE=6.1-SYNTH DISTDIR=/distfiles WRKDIRPREFIX=/construction BATCH=yes PACKAGE_BUILDING=yes PKG_CREATE_VERBOSE=yes MAKE_JOBS_NUMBER=10 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/perl5-5.32.1_1.txz Installing /packages/All/p5-Date-Manip-6.83.txz Installing /packages/All/p5-Module-Runtime-0.016.txz Installing /packages/All/p5-Dist-CheckConflicts-0.11_1.txz Installing /packages/All/p5-Class-Inspector-1.36.txz Installing /packages/All/p5-File-ShareDir-1.118.txz Installing /packages/All/p5-Class-Data-Inheritable-0.08_1.txz Installing /packages/All/p5-Devel-StackTrace-2.04.txz Installing /packages/All/p5-Exception-Class-1.45.txz Installing /packages/All/p5-Try-Tiny-0.30.txz Installing /packages/All/p5-Eval-Closure-0.14.txz Installing /packages/All/p5-Params-ValidationCompiler-0.30_1.txz Installing /packages/All/p5-Algorithm-C3-0.11.txz Installing /packages/All/p5-Class-C3-0.35.txz Installing /packages/All/p5-MRO-Compat-0.13.txz Installing /packages/All/p5-Class-Method-Modifiers-2.13.txz Installing /packages/All/p5-Role-Tiny-2.002004.txz Installing /packages/All/p5-Sub-Quote-2.006006.txz Installing /packages/All/p5-Specio-0.47.txz Installing /packages/All/p5-Module-Implementation-0.09_1.txz Installing /packages/All/p5-Params-Util-1.102.txz Installing /packages/All/p5-Sub-Install-0.928_1.txz Installing /packages/All/p5-Data-OptList-0.110.txz Installing /packages/All/p5-Sub-Exporter-0.988.txz Installing /packages/All/p5-Sub-Exporter-Progressive-0.001013.txz Installing /packages/All/p5-Variable-Magic-0.62.txz Installing /packages/All/p5-B-Hooks-EndOfScope-0.24.txz Installing /packages/All/p5-Sub-Identify-0.14.txz Installing /packages/All/p5-Package-Stash-XS-0.29.txz Installing /packages/All/p5-Package-Stash-0.39.txz Installing /packages/All/p5-namespace-clean-0.27.txz Installing /packages/All/p5-namespace-autoclean-0.29.txz Installing /packages/All/p5-DateTime-Locale-1.32.txz Installing /packages/All/p5-Class-Singleton-1.6.txz Installing /packages/All/p5-DateTime-TimeZone-2.47,1.txz Installing /packages/All/p5-Params-Validate-1.30.txz Installing /packages/All/p5-DateTime-1.54.txz Installing /packages/All/p5-DateTime-Format-DateManip-0.04_1.txz Installing /packages/All/p5-TimeDate-2.33,1.txz Installing /packages/All/p5-Mail-Tools-2.21.txz Installing /packages/All/p5-Digest-HMAC-1.04.txz Installing /packages/All/p5-Net-DNS-1.31,1.txz Installing /packages/All/p5-Net-Domain-TLD-1.75.txz Installing /packages/All/p5-Email-Valid-1.202.txz Installing /packages/All/p5-Class-Load-0.25.txz Installing /packages/All/p5-Class-Load-XS-0.10.txz Installing /packages/All/p5-Devel-GlobalDestruction-0.14.txz Installing /packages/All/p5-Devel-OverloadInfo-0.007.txz Installing /packages/All/p5-Module-Runtime-Conflicts-0.003_1.txz Installing /packages/All/p5-Sub-Name-0.26,1.txz Installing /packages/All/p5-Package-DeprecationManager-0.17_1.txz Installing /packages/All/p5-Scalar-List-Utils-1.56,1.txz Installing /packages/All/p5-Moose-2.2015,1.txz ===== Message from p5-Moose-2.2015,1: -- Note that this release of p5-Moose is incompatible with older versions of the following modules: Catalyst <= 5.80017 Devel::REPL <= 1.003008 Fey::ORM <= 0.23 File::ChangeNotify <= 0.15 KiokuDB <= 0.41 MooseX::Aliases <= 0.07 MooseX::AttributeHelpers <= 0.22 MooseX::AttributeInflate <= 0.02 MooseX::Attribute::Prototype <= 0.10 MooseX::ClassAttribute <= 0.13 MooseX::FollowPBP <= 0.02 MooseX::HasDefaults <= 0.02 MooseX::InstanceTracking <= 0.04 MooseX::LazyRequire <= 0.05 MooseX::MethodAttributes <= 0.22 MooseX::NonMoose <= 0.13 MooseX::Params::Validate <= 0.05 MooseX::Role::Cmd <= 0.06 MooseX::Role::WithOverloading <= 0.07 MooseX::SemiAffordanceAccessor <= 0.05 MooseX::Singleton <= 0.22 MooseX::StrictConstructor <= 0.08 MooseX::Types <= 0.19 MooseX::UndefTolerant <= 0.04 namespace::autoclean <= 0.08 Pod::Elemental <= 0.093280 They will need to be updated. Installing /packages/All/p5-MooseX-FollowPBP-0.05_1.txz Installing /packages/All/p5-Carp-Clan-6.08.txz Installing /packages/All/p5-Sub-Exporter-ForMethods-0.100054.txz Installing /packages/All/p5-MooseX-Types-0.50.txz Installing /packages/All/p5-Params-Coerce-0.14_2.txz Installing /packages/All/p5-Parse-RecDescent-1.967015.txz Installing /packages/All/p5-Text-CSV_XS-1.46.txz Installing /packages/All/p5-URI-5.09.txz SUCCEEDED 00:00:21 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> p5-Bio-MAGETAB-1.31_2 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> p5-Bio-MAGETAB-1.31_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by p5-Bio-MAGETAB-1.31_2 for building SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> p5-Bio-MAGETAB-1.31_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by p5-Bio-MAGETAB-1.31_2 for building => SHA256 Checksum OK for Bio-MAGETAB-1.31.tar.gz. SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> p5-Bio-MAGETAB-1.31_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by p5-Bio-MAGETAB-1.31_2 for building ===> Extracting for p5-Bio-MAGETAB-1.31_2 => SHA256 Checksum OK for Bio-MAGETAB-1.31.tar.gz. Extracted Memory Use: 1.14M SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for p5-Bio-MAGETAB-1.31_2 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Date-Manip>=5.44 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-DateTime>=0.43.02 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-DateTime-Format-DateManip>=0.04 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Email-Valid>=0.179 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Moose>=0.43 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-MooseX-FollowPBP>=0.04 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-MooseX-Types>=0.10 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Params-Coerce>=0.14 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Parse-RecDescent>=1.965001 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Text-CSV_XS>=0.32 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-URI>=1.35 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: perl5>=5.32.r0<5.33 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: perl5>=5.32.r0<5.33 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Date-Manip>=5.44 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-DateTime>=0.43.02 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-DateTime-Format-DateManip>=0.04 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Email-Valid>=0.179 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Moose>=0.43 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-MooseX-FollowPBP>=0.04 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-MooseX-Types>=0.10 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Params-Coerce>=0.14 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Parse-RecDescent>=1.965001 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Text-CSV_XS>=0.32 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-URI>=1.35 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: perl5>=5.32.r0<5.33 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: perl5>=5.32.r0<5.33 - found ===> Configuring for p5-Bio-MAGETAB-1.31_2 Checking if your kit is complete... Looks good Warning: prerequisite DateTime::Format::Flexible 0.21 not found. Warning: prerequisite Test::Exception 0.26 not found. Generating a Unix-style Makefile Writing Makefile for Bio::MAGETAB Writing MYMETA.yml and MYMETA.json SUCCEEDED 00:00:02 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for p5-Bio-MAGETAB-1.31_2 --- blib/lib/Bio/.exists --- --- blib/arch/.exists --- --- blib/lib/auto/Bio/MAGETAB/.exists --- --- blib/arch/auto/Bio/MAGETAB/.exists --- --- blib/bin/.exists --- --- blib/script/.exists --- --- blib/man1/.exists --- --- blib/man3/.exists --- --- config --- --- subdirs --- --- dynamic --- --- blib/script/deploy_magetab_db.pl --- --- blib/script/fix_ae_magetab.pl --- --- blib/script/read_magetab.pl --- --- blib/script/unload_magetab_namespace.pl --- --- pm_to_blib --- --- blib/script/deploy_magetab_db.pl --- cp scripts/deploy_magetab_db.pl blib/script/deploy_magetab_db.pl --- blib/script/read_magetab.pl --- cp scripts/read_magetab.pl blib/script/read_magetab.pl --- blib/script/deploy_magetab_db.pl --- "/usr/local/bin/perl" "-Iinc" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/deploy_magetab_db.pl --- blib/script/read_magetab.pl --- "/usr/local/bin/perl" "-Iinc" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/read_magetab.pl --- blib/script/fix_ae_magetab.pl --- cp scripts/fix_ae_magetab.pl blib/script/fix_ae_magetab.pl "/usr/local/bin/perl" "-Iinc" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/fix_ae_magetab.pl --- blib/script/unload_magetab_namespace.pl --- cp scripts/unload_magetab_namespace.pl blib/script/unload_magetab_namespace.pl "/usr/local/bin/perl" "-Iinc" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/unload_magetab_namespace.pl --- blibdirs --- --- config --- --- dynamic --- --- linkext --- --- pm_to_blib --- cp lib/Bio/MAGETAB/Util/Reader.pm blib/lib/Bio/MAGETAB/Util/Reader.pm cp lib/Bio/MAGETAB/TermSource.pm blib/lib/Bio/MAGETAB/TermSource.pm cp lib/Bio/MAGETAB/Feature.pm blib/lib/Bio/MAGETAB/Feature.pm cp lib/Bio/MAGETAB/SDRFRow.pm blib/lib/Bio/MAGETAB/SDRFRow.pm cp lib/Bio/MAGETAB/Util/Writer/ADF.pm blib/lib/Bio/MAGETAB/Util/Writer/ADF.pm cp lib/Bio/MAGETAB/Investigation.pm blib/lib/Bio/MAGETAB/Investigation.pm cp lib/Bio/MAGETAB/Util/RewriteAE.pm blib/lib/Bio/MAGETAB/Util/RewriteAE.pm cp lib/Bio/MAGETAB/Protocol.pm blib/lib/Bio/MAGETAB/Protocol.pm cp lib/Bio/MAGETAB/Event.pm blib/lib/Bio/MAGETAB/Event.pm cp lib/Bio/MAGETAB/Types.pm blib/lib/Bio/MAGETAB/Types.pm cp lib/Bio/MAGETAB/MatrixColumn.pm blib/lib/Bio/MAGETAB/MatrixColumn.pm cp lib/Bio/MAGETAB/Util/Writer/SDRF.pm blib/lib/Bio/MAGETAB/Util/Writer/SDRF.pm cp lib/Bio/MAGETAB/CompositeElement.pm blib/lib/Bio/MAGETAB/CompositeElement.pm cp lib/Bio/MAGETAB/Normalization.pm blib/lib/Bio/MAGETAB/Normalization.pm cp lib/Bio/MAGETAB/Util/Reader/IDF.pm blib/lib/Bio/MAGETAB/Util/Reader/IDF.pm cp lib/Bio/MAGETAB/Edge.pm blib/lib/Bio/MAGETAB/Edge.pm cp lib/Bio/MAGETAB/DesignElement.pm blib/lib/Bio/MAGETAB/DesignElement.pm cp lib/Bio/MAGETAB/Util/Persistence.pm blib/lib/Bio/MAGETAB/Util/Persistence.pm cp lib/Bio/MAGETAB/Util/Reader/ADF.pm blib/lib/Bio/MAGETAB/Util/Reader/ADF.pm cp lib/Bio/MAGETAB/ParameterValue.pm blib/lib/Bio/MAGETAB/ParameterValue.pm cp lib/Bio/MAGETAB/Data.pm blib/lib/Bio/MAGETAB/Data.pm cp lib/Bio/MAGETAB/SDRF.pm blib/lib/Bio/MAGETAB/SDRF.pm cp lib/Bio/MAGETAB/DataAcquisition.pm blib/lib/Bio/MAGETAB/DataAcquisition.pm cp lib/Bio/MAGETAB/Util/Reader/SDRF.pm blib/lib/Bio/MAGETAB/Util/Reader/SDRF.pm cp lib/Bio/MAGETAB/Util/Writer/IDF.pm blib/lib/Bio/MAGETAB/Util/Writer/IDF.pm cp lib/Bio/MAGETAB/Publication.pm blib/lib/Bio/MAGETAB/Publication.pm cp lib/Bio/MAGETAB/Comment.pm blib/lib/Bio/MAGETAB/Comment.pm cp lib/Bio/MAGETAB/Util/Reader/Tabfile.pm blib/lib/Bio/MAGETAB/Util/Reader/Tabfile.pm cp lib/Bio/MAGETAB/Util/Reader/DataMatrix.pm blib/lib/Bio/MAGETAB/Util/Reader/DataMatrix.pm cp lib/Bio/MAGETAB/DataMatrix.pm blib/lib/Bio/MAGETAB/DataMatrix.pm cp lib/Bio/MAGETAB/ControlledTerm.pm blib/lib/Bio/MAGETAB/ControlledTerm.pm cp lib/Bio/MAGETAB/ArrayDesign.pm blib/lib/Bio/MAGETAB/ArrayDesign.pm cp lib/Bio/MAGETAB/Util/Writer/Tabfile.pm blib/lib/Bio/MAGETAB/Util/Writer/Tabfile.pm cp lib/Bio/MAGETAB/Util/Builder.pm blib/lib/Bio/MAGETAB/Util/Builder.pm cp lib/Bio/MAGETAB/Assay.pm blib/lib/Bio/MAGETAB/Assay.pm cp lib/Bio/MAGETAB/Util/Reader/TagValueFile.pm blib/lib/Bio/MAGETAB/Util/Reader/TagValueFile.pm cp lib/Bio/MAGETAB/Extract.pm blib/lib/Bio/MAGETAB/Extract.pm cp lib/Bio/MAGETAB/ProtocolParameter.pm blib/lib/Bio/MAGETAB/ProtocolParameter.pm cp lib/Bio/MAGETAB/Util/Writer.pm blib/lib/Bio/MAGETAB/Util/Writer.pm cp lib/Bio/MAGETAB/Sample.pm blib/lib/Bio/MAGETAB/Sample.pm cp lib/Bio/MAGETAB.pm blib/lib/Bio/MAGETAB.pm cp lib/Bio/MAGETAB/Factor.pm blib/lib/Bio/MAGETAB/Factor.pm cp lib/Bio/MAGETAB/DataFile.pm blib/lib/Bio/MAGETAB/DataFile.pm cp lib/Bio/MAGETAB/FactorValue.pm blib/lib/Bio/MAGETAB/FactorValue.pm cp lib/Bio/MAGETAB/Material.pm blib/lib/Bio/MAGETAB/Material.pm cp lib/Bio/MAGETAB/ProtocolApplication.pm blib/lib/Bio/MAGETAB/ProtocolApplication.pm cp lib/Bio/MAGETAB/Util/DBLoader.pm blib/lib/Bio/MAGETAB/Util/DBLoader.pm cp lib/Bio/MAGETAB/BaseClass.pm blib/lib/Bio/MAGETAB/BaseClass.pm cp lib/Bio/MAGETAB/Node.pm blib/lib/Bio/MAGETAB/Node.pm cp lib/Bio/MAGETAB/Measurement.pm blib/lib/Bio/MAGETAB/Measurement.pm cp lib/Bio/MAGETAB/MatrixRow.pm blib/lib/Bio/MAGETAB/MatrixRow.pm cp lib/Bio/MAGETAB/Util/Writer/GraphViz.pm blib/lib/Bio/MAGETAB/Util/Writer/GraphViz.pm cp lib/Bio/MAGETAB/Contact.pm blib/lib/Bio/MAGETAB/Contact.pm cp lib/Bio/MAGETAB/DatabaseEntry.pm blib/lib/Bio/MAGETAB/DatabaseEntry.pm cp lib/Bio/MAGETAB/Reporter.pm blib/lib/Bio/MAGETAB/Reporter.pm cp lib/Bio/MAGETAB/LabeledExtract.pm blib/lib/Bio/MAGETAB/LabeledExtract.pm cp lib/Bio/MAGETAB/Source.pm blib/lib/Bio/MAGETAB/Source.pm --- pure_all --- --- pure_all --- --- manifypods --- Manifying 57 pod documents --- all --- SUCCEEDED 00:00:02 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Date-Manip>=5.44 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-DateTime>=0.43.02 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-DateTime-Format-DateManip>=0.04 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Email-Valid>=0.179 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Moose>=0.43 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-MooseX-FollowPBP>=0.04 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-MooseX-Types>=0.10 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Params-Coerce>=0.14 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Parse-RecDescent>=1.965001 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Text-CSV_XS>=0.32 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-URI>=1.35 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: perl5>=5.32.r0<5.33 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for p5-Bio-MAGETAB-1.31_2 ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Date-Manip>=5.44 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-DateTime>=0.43.02 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-DateTime-Format-DateManip>=0.04 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Email-Valid>=0.179 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Moose>=0.43 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-MooseX-FollowPBP>=0.04 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-MooseX-Types>=0.10 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Params-Coerce>=0.14 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Parse-RecDescent>=1.965001 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-Text-CSV_XS>=0.32 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: p5-URI>=1.35 - found ===> p5-Bio-MAGETAB-1.31_2 depends on package: perl5>=5.32.r0<5.33 - found ===> Generating temporary packing list Manifying 57 pod documents Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/TermSource.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Feature.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/SDRFRow.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Investigation.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Protocol.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Event.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Types.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/MatrixColumn.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/CompositeElement.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Normalization.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Edge.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/DesignElement.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/ParameterValue.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Data.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/SDRF.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/DataAcquisition.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Publication.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Comment.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/DataMatrix.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/ControlledTerm.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/ArrayDesign.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Assay.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Extract.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/ProtocolParameter.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Sample.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Factor.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/DataFile.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/FactorValue.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Material.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/ProtocolApplication.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/BaseClass.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Node.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Measurement.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/MatrixRow.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Contact.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/DatabaseEntry.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Reporter.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/LabeledExtract.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Source.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Reader.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/RewriteAE.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Persistence.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Builder.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Writer.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/DBLoader.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Writer/ADF.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Writer/SDRF.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Writer/IDF.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Writer/Tabfile.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Writer/GraphViz.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Reader/IDF.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Reader/ADF.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Reader/SDRF.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Reader/Tabfile.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Reader/DataMatrix.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/Bio/MAGETAB/Util/Reader/TagValueFile.pm Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::ArrayDesign.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Assay.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::BaseClass.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Comment.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::CompositeElement.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Contact.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::ControlledTerm.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Reader.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Reader::ADF.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Reader::DataMatrix.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Reader::IDF.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Reader::SDRF.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Reader::Tabfile.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Reader::TagValueFile.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::RewriteAE.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Writer.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Writer::ADF.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Writer::GraphViz.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Writer::IDF.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Writer::SDRF.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Writer::Tabfile.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Data.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::DataAcquisition.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::DataFile.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::DataMatrix.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::DatabaseEntry.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::DesignElement.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Edge.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Event.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Extract.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Factor.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::FactorValue.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Feature.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Investigation.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::LabeledExtract.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Material.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::MatrixColumn.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::MatrixRow.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Measurement.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Node.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Normalization.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::ParameterValue.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Protocol.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::ProtocolApplication.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::ProtocolParameter.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Publication.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Reporter.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::SDRF.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::SDRFRow.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Sample.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Source.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::TermSource.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Types.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Builder.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::DBLoader.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::MAGETAB::Util::Persistence.3 Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/bin/deploy_magetab_db.pl Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/bin/fix_ae_magetab.pl Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/bin/read_magetab.pl Installing /construction/biology/p5-Bio-MAGETAB/stage/usr/local/bin/unload_magetab_namespace.pl ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Notice: You have some Perl modules as dependencies but you do not have devel/p5-Module-CoreList installed, the perlcore QA check gets better results when using it, especially with older Perl versions. Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks SUCCEEDED 00:00:07 ------------------------------------------------------------------------------- -- Phase: check-plist ------------------------------------------------------------------------------- ====> Checking for pkg-plist issues (check-plist) ===> Parsing plist ===> Checking for items in STAGEDIR missing from pkg-plist ===> Checking for items in pkg-plist which are not in STAGEDIR ===> No pkg-plist issues found (check-plist) SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for p5-Bio-MAGETAB-1.31_2 file sizes/checksums [119]: 0% file sizes/checksums [119]: 84% file sizes/checksums [119]: 100% packing files [119]: 0% packing files [119]: 84% packing files [119]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:01 TOTAL TIME 00:00:36