Skip site navigation (1)Skip section navigation (2)
Date:      Sat, 17 Apr 2021 02:53:15 GMT
From:      pkg-fallout@FreeBSD.org
To:        sunpoet@FreeBSD.org
Cc:        pkg-fallout@FreeBSD.org
Subject:   [package - main-amd64-default][biology/p5-BioPerl] Failed for p5-BioPerl-1.007007_1 in stage
Message-ID:  <202104170253.13H2rFUb057593@beefy18.nyi.freebsd.org>

next in thread | raw e-mail | index | archive | help
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://beefy18.nyi.freebsd.org/data/main-amd64-default/p9d5f4ef1a469_s86046cf55f/logs/p5-BioPerl-1.007007_1.log
Build URL:      http://beefy18.nyi.freebsd.org/build.html?mastername=main-amd64-default&build=p9d5f4ef1a469_s86046cf55f
Log:

=>> Building biology/p5-BioPerl
build started at Sat Apr 17 02:52:46 UTC 2021
port directory: /usr/ports/biology/p5-BioPerl
package name: p5-BioPerl-1.007007_1
building for: FreeBSD main-amd64-default-job-04 14.0-CURRENT FreeBSD 14.0-CURRENT 1400008 amd64
maintained by: sunpoet@FreeBSD.org
Makefile ident: 
Poudriere version: 3.2.8-8-gaf08dbda
Host OSVERSION: 1400003
Jail OSVERSION: 1400008
Job Id: 04




!!! Jail is newer than host. (Jail: 1400008, Host: 1400003) !!!
!!! 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-amd64-default/ref
POUDRIERE_BUILD_TYPE=bulk
PACKAGE_BUILDING=yes
SAVED_TERM=
PWD=/usr/local/poudriere/data/.m/main-amd64-default/ref/.p/pool
P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS
MASTERNAME=main-amd64-default
SCRIPTPREFIX=/usr/local/share/poudriere
OLDPWD=/usr/local/poudriere/data/.m/main-amd64-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: x86_64-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: x86_64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin "/usr/bin/ld" "--eh-frame-hdr" "-dynamic-linker" "/libexec/ld-elf.so.1" "--hash-style=both" "--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: x86_64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin
_OBJC_ALTCCVERSION_921dbbb2=none
ARCH=amd64
OPSYS=FreeBSD
_OSRELEASE=14.0-CURRENT
OSREL=14.0
OSVERSION=1400008
PYTHONBASE=/usr/local
HAVE_COMPAT_IA32_KERN=YES
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)  33554432
stack size              (kbytes, -s)  524288
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-amd64-default-job-04] Installing pkg-1.16.3...
[main-amd64-default-job-04] 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-amd64-default-job-04] Installing p5-Data-Stag-0.14_2...
[main-amd64-default-job-04] `-- Installing p5-IO-String-1.08_1...
[main-amd64-default-job-04] |   `-- Installing perl5-5.32.1_1...
<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



Want to link to this message? Use this URL: <https://mail-archive.FreeBSD.org/cgi/mid.cgi?202104170253.13H2rFUb057593>