Date: Sat, 17 Apr 2021 02:33:47 GMT From: pkg-fallout@FreeBSD.org To: pkg-fallout@FreeBSD.org Subject: [package - main-arm64-default][biology/p5-BioPerl] Failed for p5-BioPerl-1.007007_1 in stage Message-ID: <202104170233.13H2XlKm094705@ampere2.nyi.freebsd.org>
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You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: sunpoet@FreeBSD.org Last committer: @FreeBSD.org Ident: Makefile ident: Log URL: http://ampere2.nyi.freebsd.org/data/main-arm64-default/p9d5f4ef1a469_s86046cf55f/logs/p5-BioPerl-1.007007_1.log Build URL: http://ampere2.nyi.freebsd.org/build.html?mastername=main-arm64-default&build=p9d5f4ef1a469_s86046cf55f Log: =>> Building biology/p5-BioPerl build started at Sat Apr 17 02:32:53 UTC 2021 port directory: /usr/ports/biology/p5-BioPerl package name: p5-BioPerl-1.007007_1 building for: FreeBSD main-arm64-default-job-13 14.0-CURRENT FreeBSD 14.0-CURRENT 1400008 arm64 maintained by: sunpoet@FreeBSD.org Makefile ident: Poudriere version: 3.2.8-8-gaf08dbda Host OSVERSION: 1300139 Jail OSVERSION: 1400008 Job Id: 13 !!! Jail is newer than host. (Jail: 1400008, Host: 1300139) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/csh OSVERSION=1400008 UNAME_v=FreeBSD 14.0-CURRENT 1400008 UNAME_r=14.0-CURRENT BLOCKSIZE=K MAIL=/var/mail/root MM_CHARSET=UTF-8 LANG=C.UTF-8 STATUS=1 HOME=/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin LOCALBASE=/usr/local USER=root LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.2.8-8-gaf08dbda MASTERMNT=/usr/local/poudriere/data/.m/main-arm64-default/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/main-arm64-default/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=main-arm64-default SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/main-arm64-default/ref/.p SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= DEPENDS_ARGS= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ===> The following configuration options are available for p5-BioPerl-1.007007_1: DOCS=on: Build and/or install documentation EXAMPLES=on: Build and/or install examples ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- sunpoet@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- INSTALLDIRS="site" CC="cc" CCFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " LD="cc" PREFIX="/usr/local" INSTALLPRIVLIB="/usr/local/lib" INSTALLARCHLIB="/usr/local/lib" --End CONFIGURE_ARGS-- --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=/wrkdirs/usr/ports/biology/p5-BioPerl/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/p5-BioPerl/work HOME=/wrkdirs/usr/ports/biology/p5-BioPerl/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/p5-BioPerl/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh PERL_EXTUTILS_AUTOINSTALL="--skipdeps" PERL_MM_USE_DEFAULT="YES" --End CONFIGURE_ENV-- --MAKE_ENV-- PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/biology/p5-BioPerl/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/p5-BioPerl/work HOME=/wrkdirs/usr/ports/biology/p5-BioPerl/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/p5-BioPerl/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -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" --End MAKE_ENV-- --PLIST_SUB-- PORTDOCS="" PORTEXAMPLES="" OSREL=14.0 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 DOCSDIR="share/doc/BioPerl" EXAMPLESDIR="share/examples/BioPerl" DATADIR="share/BioPerl" WWWDIR="www/BioPerl" ETCDIR="etc/BioPerl" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/BioPerl DOCSDIR=/usr/local/share/doc/BioPerl EXAMPLESDIR=/usr/local/share/examples/BioPerl WWWDIR=/usr/local/www/BioPerl ETCDIR=/usr/local/etc/BioPerl --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### /usr/local/etc/poudriere.d/make.conf #### # XXX: We really need this but cannot use it while 'make checksum' does not # try the next mirror on checksum failure. It currently retries the same # failed mirror and then fails rather then trying another. It *does* # try the next if the size is mismatched though. #MASTER_SITE_FREEBSD=yes # Build ALLOW_MAKE_JOBS_PACKAGES with 2 jobs MAKE_JOBS_NUMBER=2 #### /usr/ports/Mk/Scripts/ports_env.sh #### _CCVERSION_921dbbb2=FreeBSD clang version 11.0.1 (git@github.com:llvm/llvm-project.git llvmorg-11.0.1-0-g43ff75f2c3fe) Target: aarch64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin _ALTCCVERSION_921dbbb2=none _CXXINTERNAL_acaad9ca=FreeBSD clang version 11.0.1 (git@github.com:llvm/llvm-project.git llvmorg-11.0.1-0-g43ff75f2c3fe) Target: aarch64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin "/usr/bin/ld" "--eh-frame-hdr" "-dynamic-linker" "/libexec/ld-elf.so.1" "--enable-new-dtags" "-o" "a.out" "/usr/lib/crt1.o" "/usr/lib/crti.o" "/usr/lib/crtbegin.o" "-L/usr/lib" "/dev/null" "-lc++" "-lm" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "-lc" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "/usr/lib/crtend.o" "/usr/lib/crtn.o" CC_OUTPUT_921dbbb2_58173849=yes CC_OUTPUT_921dbbb2_9bdba57c=yes CC_OUTPUT_921dbbb2_6a4fe7f5=yes CC_OUTPUT_921dbbb2_6bcac02b=yes CC_OUTPUT_921dbbb2_67d20829=yes CC_OUTPUT_921dbbb2_bfa62e83=yes CC_OUTPUT_921dbbb2_f0b4d593=yes CC_OUTPUT_921dbbb2_308abb44=yes CC_OUTPUT_921dbbb2_f00456e5=yes CC_OUTPUT_921dbbb2_65ad290d=yes CC_OUTPUT_921dbbb2_f2776b26=yes CC_OUTPUT_921dbbb2_b2657cc3=yes CC_OUTPUT_921dbbb2_380987f7=yes CC_OUTPUT_921dbbb2_160933ec=yes CC_OUTPUT_921dbbb2_fb62803b=yes _OBJC_CCVERSION_921dbbb2=FreeBSD clang version 11.0.1 (git@github.com:llvm/llvm-project.git llvmorg-11.0.1-0-g43ff75f2c3fe) Target: aarch64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin _OBJC_ALTCCVERSION_921dbbb2=none ARCH=aarch64 OPSYS=FreeBSD _OSRELEASE=14.0-CURRENT OSREL=14.0 OSVERSION=1400008 PYTHONBASE=/usr/local CONFIGURE_MAX_CMD_LEN=524288 HAVE_PORTS_ENV=1 #### Misc Poudriere #### GID=0 UID=0 ---End make.conf--- --Resource limits-- cpu time (seconds, -t) unlimited file size (512-blocks, -f) unlimited data seg size (kbytes, -d) 1048576 stack size (kbytes, -s) 1048576 core file size (512-blocks, -c) unlimited max memory size (kbytes, -m) unlimited locked memory (kbytes, -l) unlimited max user processes (-u) 89999 open files (-n) 1024 virtual mem size (kbytes, -v) unlimited swap limit (kbytes, -w) unlimited socket buffer size (bytes, -b) unlimited pseudo-terminals (-p) unlimited kqueues (-k) unlimited umtx shared locks (-o) unlimited --End resource limits-- =======================<phase: check-sanity >============================ ===> License ART10 GPLv1+ accepted by the user =========================================================================== =======================<phase: pkg-depends >============================ ===> p5-BioPerl-1.007007_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.16.3.txz [main-arm64-default-job-13] Installing pkg-1.16.3... [main-arm64-default-job-13] Extracting pkg-1.16.3: .......... done ===> p5-BioPerl-1.007007_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of p5-BioPerl-1.007007_1 =========================================================================== =======================<phase: fetch-depends >============================ =========================================================================== =======================<phase: fetch >============================ ===> License ART10 GPLv1+ accepted by the user ===> Fetching all distfiles required by p5-BioPerl-1.007007_1 for building =========================================================================== =======================<phase: checksum >============================ ===> License ART10 GPLv1+ accepted by the user ===> Fetching all distfiles required by p5-BioPerl-1.007007_1 for building => SHA256 Checksum OK for BioPerl-1.7.7.tar.gz. =========================================================================== =======================<phase: extract-depends>============================ =========================================================================== =======================<phase: extract >============================ ===> License ART10 GPLv1+ accepted by the user ===> Fetching all distfiles required by p5-BioPerl-1.007007_1 for building ===> Extracting for p5-BioPerl-1.007007_1 => SHA256 Checksum OK for BioPerl-1.7.7.tar.gz. =========================================================================== =======================<phase: patch-depends >============================ =========================================================================== =======================<phase: patch >============================ ===> Patching for p5-BioPerl-1.007007_1 =========================================================================== =======================<phase: build-depends >============================ ===> p5-BioPerl-1.007007_1 depends on package: p5-Data-Stag>=0 - not found ===> Installing existing package /packages/All/p5-Data-Stag-0.14_2.txz [main-arm64-default-job-13] Installing p5-Data-Stag-0.14_2... [main-arm64-default-job-13] `-- Installing p5-IO-String-1.08_1... [main-arm64-default-job-13] | `-- Installing perl5-5.32.1_1... [main-arm64-default-job-13] | `-- Extracting perl5-5.32.1_1: .......... done <snip> Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tree::Node.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::Quality.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::psl.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Root::Storable.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Root::HTTPget.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::TreeIO::nexus.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::HSP::HSPFactory.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::Meta::Array.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::Generic.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::QRNA.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Flat::BDB::swiss.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::tigrxml.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::OntologyIO::Handlers::InterPro_BioSQL_Handler.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::Hit::PsiBlastHit.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::SeqWords.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::HSP::ModelHSP.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::SequenceTrace.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::LargePrimarySeq.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SimpleAnalysisI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqFeature::Primer.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::WebAgent.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::arp.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqFeature::Gene::GeneStructure.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Index::Swissprot.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::GuessSeqFormat.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Location::WidestCoordPolicy.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::SeqI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::Scoring.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::RelationshipI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqAnalysisParserI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqFeature::AnnotationAdaptor.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::gbdriver.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Location::Split.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::phd.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::FastHitEventBuilder.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::isPcr.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Index::Qual.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::AnalysisResult.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Factory::SeqAnalysisParserFactory.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Primer::AssessorI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Taxonomy::flatfile.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::OBOterm.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::HSP::PullHSPI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::ProtMatrix.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Taxonomy::silva.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Event::EventHandlerI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tree::AnnotatableNode.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Run::ParametersI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::msf.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Location::Simple.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::selex.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqFeature::Generic.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqFeature::Gene::NC_Feature.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::HSP::BlastHSP.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqFeature::Gene::ExonI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tree::TreeFunctionsI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::LargeLocatableSeq.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Signalp.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Registry.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Taxon.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Factory::AnalysisI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::IO.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::pICalculator.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Location::SplitLocationI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqFeature::FeaturePair.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::blast_pull.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::largefasta.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::OntologyI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::interpro.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Primer::Feature.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::Ontology.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Location::FuzzyLocationI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::TreeIO::newick.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::LargeSeq.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::PrositeScan.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::locuslink.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::IO::mlagan.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Run::Phylo::PhyloBase.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::Processor.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tree::TreeI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::SearchResultEventBuilder.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Sigcleave.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Factory::SequenceStreamI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Prediction::Gene.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::Tiling::MapTileUtils.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::IO::scoring.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::largemultifasta.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Align::PairwiseStatistics.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::DocumentRegistry.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::phylip.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::Reference.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::LocationI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Factory::FTLocationFactory.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::SeqPattern::Backtranslate.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tree::DistanceFactory.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Das::FeatureTypeI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::Target.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::EPCR.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::LargeSeqI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::emboss.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::PsmHeader.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::IO::meme.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Index::SwissPfam.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::fasta.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::Result::ResultFactory.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::xmfa.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::Collection.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Root::IO.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::OntologyIO.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::game::gameWriter.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::meme.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::Result::ResultI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Lucy.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::RichSeq.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Align::ProteinStatistics.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Failover.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::UpdateableSeqI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqFeatureI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::fasta.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Index::AbstractSeq.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Genewise.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::swiss.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Index::GenBank.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Factory::SequenceFactoryI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::OntologyIO::soflat.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SearchIO::Writer::ResultTableWriter.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::GenericWebAgent.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::bl2seq.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::mbsout.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Ontology::SimpleGOEngine::GraphAdaptor.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AlignIO::po.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::IndexedBase.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::IUPAC.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::AnnotatableI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Seq::QualI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::ReferenceI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Annotation::TagTree.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::ipcress.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::PSM::Psm.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DasI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqFeature::Gene::Poly_A_site.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Tools::Phylo::Molphy::Result.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::TreeIO::TreeEventBuilder.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Factory::SeqAnalysisParserFactoryI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Search::Hit::HitI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Matrix::Mlagan.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SeqIO::msout.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::Flat::BDB.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::Align::AlignI.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::CodonUsage::Table.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::LocatableSeq.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::DB::FileCache.3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_local_taxonomydb_query Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_nrdb Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_taxid4species Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_search2tribe Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_taxonomy2tree Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_sreformat Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_mrtrans Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_extract_feature_seq Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_seqcut Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_mask_by_search Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_index Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_process_gadfly Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_biogetseq Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_search2alnblocks Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_gccalc Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_process_sgd Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_translate_seq Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_seqret Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_find-blast-matches Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_make_mrna_protein Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_seq_length Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_split_seq Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_genbank2gff3 Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_nexus2nh Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_seqconvert Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_revtrans-motif Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_seqpart Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_tree2pag Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_search2table Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_search2gff Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_dbsplit Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_mutate Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_fastam9_to_table Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_oligo_count Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_fetch Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_bioflat_index Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_unflatten_seq Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_aacomp Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_filter_search Installing /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/bin/bp_seqretsplit cd /wrkdirs/usr/ports/biology/p5-BioPerl/work/BioPerl-1.7.7 && install -m 0644 AUTHORS Changes MANIFEST README.md /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/share/doc/BioPerl cd /wrkdirs/usr/ports/biology/p5-BioPerl/work/BioPerl-1.7.7/examples/ && /bin/sh -c '(/usr/bin/find -Ed $1 $3 | /usr/bin/cpio -dumpl $2 >/dev/null 2>&1) && /usr/bin/find -Ed $1 $3 \( -type d -exec /bin/sh -c '\''cd '\''$2'\'' && chmod 755 "$@"'\'' . {} + -o -type f -exec /bin/sh -c '\''cd '\''$2'\'' && chmod 0644 "$@"'\'' . {} + \)' COPYTREE_SHARE . /wrkdirs/usr/ports/biology/p5-BioPerl/work/stage/usr/local/share/examples/BioPerl *** Error code 1 Stop. make: stopped in /usr/ports/biology/p5-BioPerl
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