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From: metabase:user:30977d10-2aae-11df-837a-5e0a49663a4f
Subject: FAIL BioPerl-Run-1.006900 v5.8.9 GNU/Linux
Date: 2011-08-06T04:59:31Z
This distribution has been tested as part of the CPAN Testers
project, supporting the Perl programming language. See
http://wiki.cpantesters.org/ for more information or email
questions to cpan-testers-discuss@perl.org
--
Dear Christopher Fields,
This is a computer-generated report for BioPerl-Run-1.006900
on perl 5.8.9, created by CPAN-Reporter-1.1902.
Thank you for uploading your work to CPAN. However, there was a problem
testing your distribution.
If you think this report is invalid, please consult the CPAN Testers Wiki
for suggestions on how to avoid getting FAIL reports for missing library
or binary dependencies, unsupported operating systems, and so on:
http://wiki.cpantesters.org/wiki/CPANAuthorNotes
Sections of this report:
* Tester comments
* Program output
* Prerequisites
* Environment and other context
------------------------------
TESTER COMMENTS
------------------------------
Additional comments from tester:
this report is from an automated smoke testing program
and was not reviewed by a human for accuracy
------------------------------
PROGRAM OUTPUT
------------------------------
Output from './Build test':
# Required executable for Bio::Tools::Run::Alignment::Amap is not present
t/Amap.t ...................... ok
t/AnalysisFactory_soap.t ...... skipped: Network tests have not been requested
t/Analysis_soap.t ............. skipped: Network tests have not been requested
Bareword found where operator expected at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 331, near "$self->_validate_file_input(-bgv => $bgv) || $self->throw("File '$bgv' not BED/GFF"
(Might be a runaway multi-line // string starting on line 326)
(Missing operator before GFF?)
Bareword found where operator expected at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 343, near "$self->_validate_file_input(-bam => $bam) || $self->throw("File"
(Might be a runaway multi-line "" string starting on line 331)
(Missing operator before File?)
String found where operator expected at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 343, near "File '$bam'"
(Do you need to predeclare File?)
Bareword found where operator expected at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 362, near "$self->_validate_file_input(-bgv => $bgv) || $self->throw("File"
(Might be a runaway multi-line "" string starting on line 343)
(Missing operator before File?)
String found where operator expected at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 362, near "File '$bgv'"
(Do you need to predeclare File?)
Bareword found where operator expected at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 377, near "$self->_validate_file_input(-bed => $bed) || $self->throw("File"
(Might be a runaway multi-line "" string starting on line 362)
(Missing operator before File?)
String found where operator expected at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 377, near "File '$bgv'"
(Do you need to predeclare File?)
Possible unintended interpolation of @c in string at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 377.
Possible unintended interpolation of @o in string at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 379.
Bareword found where operator expected at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 382, near "$self->throw("The"
(Might be a runaway multi-line "" string starting on line 380)
(Missing operator before The?)
Bareword found where operator expected at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 382, near "'group_by' requires"
(Missing operator before requires?)
String found where operator expected at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 382, near "requires ".""
(Do you need to predeclare requires?)
Bareword found where operator expected at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 382, near ""."paired"
(Missing operator before paired?)
String found where operator expected at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 382, near "paired "x($o == $c).""
(Do you need to predeclare paired?)
String found where operator expected at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 382, near ""x($o == $c)."'-columns'"
Scalar found where operator expected at (eval 69) line 2, near "$bgv"
(Might be a runaway multi-line '' string starting on line 1)
(Missing operator before $bgv?)
String found where operator expected at (eval 69) line 14, at end of line
(Might be a runaway multi-line '' string starting on line 2)
(Missing operator before ' not BED/GFF"
Global symbol "$c" requires explicit package name at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 377.
Global symbol "@c" requires explicit package name at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 377.
Global symbol "$o" requires explicit package name at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 379.
Global symbol "@o" requires explicit package name at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 379.
Global symbol "$c" requires explicit package name at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 380.
Global symbol "$o" requires explicit package name at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 380.
Global symbol "$c" requires explicit package name at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 380.
Global symbol "$o" requires explicit package name at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 382.
Global symbol "$c" requires explicit package name at /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm line 382.
/home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm has too many errors.
Compilation failed in require at (eval 19) line 1.
'?)
Use of uninitialized value in pattern match (m//) at /home/trushel/perl/perl589th/lib/site_perl/5.8.9/Bio/Tools/Run/WrapperBase/CommandExts.pm line 499.
Use of uninitialized value in pattern match (m//) at /home/trushel/perl/perl589th/lib/site_perl/5.8.9/Bio/Tools/Run/WrapperBase/CommandExts.pm line 1194.
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: This wrapper represents a single program with commands, not multiple programs; can't use executables()
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/trushel/perl/perl589th/lib/site_perl/5.8.9/Bio/Root/Root.pm:472
STACK: Bio::Tools::Run::WrapperBase::executables /home/trushel/perl/perl589th/lib/site_perl/5.8.9/Bio/Tools/Run/WrapperBase/CommandExts.pm:720
STACK: Bio::Tools::Run::BEDTools::new /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/BEDTools.pm:234
STACK: t/BEDTools.t:26
-----------------------------------------------------------
t/BEDTools.t ..................
Dubious, test returned 2 (wstat 512, 0x200)
No subtests run
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: __PACKAGE__ requires installation of samtools (libbam) and Bio::DB::Sam (available on CPAN; not part of BioPerl)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/trushel/perl/perl589th/lib/site_perl/5.8.9/Bio/Root/Root.pm:472
STACK: Bio::Assembly::IO::sam::BEGIN /home/trushel/perl/perl589th/lib/site_perl/5.8.9/Bio/Assembly/IO/sam.pm:189
STACK: main::BEGIN /home/trushel/perl/perl589th/lib/site_perl/5.8.9/Bio/Assembly/IO/sam.pm:195
STACK: /home/trushel/perl/perl589th/lib/site_perl/5.8.9/Bio/Assembly/IO/sam.pm:195
-----------------------------------------------------------
BEGIN failed--compilation aborted at /home/trushel/perl/perl589th/lib/site_perl/5.8.9/Bio/Assembly/IO/sam.pm line 195.
Compilation failed in require at t/BWA.t line 21.
BEGIN failed--compilation aborted at t/BWA.t line 21.
# Looks like your test exited with 2 before it could output anything.
t/BWA.t .......................
Dubious, test returned 2 (wstat 512, 0x200)
Failed 36/36 subtests
# Required executable for Bio::Tools::Run::Alignment::Blat is not present
# Looks like you planned 33 tests but ran 20.
t/Blat.t ......................
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 13/33 subtests
(less 15 skipped subtests: 5 okay)
32768# Required executable for Bio::Tools::Run::Bowtie is not present
t/Bowtie.t .................... ok
# Required executable for Bio::Tools::Run::Cap3 is not present
t/Cap3.t ...................... ok
# Required executable for Bio::Tools::Run::Alignment::Clustalw is not present
t/Clustalw.t .................. ok
# Required executable for Bio::Tools::Run::Coil is not present
t/Coil.t ...................... ok
# Required executable for Bio::Tools::Run::Phylo::Phylip::Consense is not present
t/Consense.t .................. ok
# Required executable for Bio::Tools::Run::Alignment::DBA is not present
t/DBA.t ....................... ok
# Required executable for Bio::Tools::Run::Phylo::Phylip::DrawGram is not present
t/DrawGram.t .................. ok
# Required executable for Bio::Tools::Run::Phylo::Phylip::DrawTree is not present
t/DrawTree.t .................. ok
t/EMBOSS.t .................... ok
t/Ensembl.t ................... skipped: Network tests have not been requested
# Required environment variable $EPONINEDIR is not set
t/Eponine.t ................... ok
# Required executable for Bio::Tools::Run::Alignment::Exonerate is not present
t/Exonerate.t ................. ok
# Required executable for Bio::Tools::Run::FootPrinter is not present
t/FootPrinter.t ............... ok
# Required environment variable $GENEMARK_MODELS is not set
t/Genemark.hmm.prokaryotic.t .. ok
# Required executable for Bio::Tools::Run::Genewise is not present
t/Genewise.t .................. ok
# Required environment variable $GENSCANDIR is not set
t/Genscan.t ................... ok
# Required executable for Bio::Tools::Run::Phylo::Gerp is not present
t/Gerp.t ...................... ok
# Required executable for Bio::Tools::Run::Glimmer is not present
t/Glimmer2.t .................. ok
# Required executable for Bio::Tools::Run::Glimmer is not present
t/Glimmer3.t .................. ok
# Required executable for Bio::Tools::Run::Phylo::Gumby is not present
t/Gumby.t ..................... ok
# Required executable for Bio::Tools::Run::Hmmer is not present
t/Hmmer.t ..................... ok
# Required executable for Bio::Tools::Run::Phylo::Hyphy::SLAC is not present
t/Hyphy.t ..................... ok
# Required executable for Bio::Tools::Run::Infernal is not present
t/Infernal.t .................. ok
# Required executable for Bio::Tools::Run::Alignment::Kalign is not present
t/Kalign.t .................... ok
# Required executable for Bio::Tools::Run::Phylo::LVB is not present
t/LVB.t ....................... ok
# Required executable for Bio::Tools::Run::Alignment::Lagan is not present
t/Lagan.t ..................... ok
# Required executable for Bio::Tools::Run::Alignment::MAFFT is not present
t/MAFFT.t ..................... ok
# Required executable for Bio::Tools::Run::MCS is not present
t/MCS.t ....................... ok
# Required executable for Bio::Tools::Run::Maq is not present
t/Maq.t ....................... ok
# Required executable for Bio::Tools::Run::Match is not present
t/Match.t ..................... ok
# Required executable for Bio::Tools::Run::Mdust is not present
t/Mdust.t ..................... ok
# Required executable for Bio::Tools::Run::Meme is not present
t/Meme.t ...................... ok
# Required executable for Bio::Tools::Run::Minimo is not present
t/Minimo.t .................... ok
# Required executable for Bio::Tools::Run::Phylo::Molphy::ProtML is not present
t/Molphy.t .................... ok
# Required executable for Bio::Tools::Run::Alignment::Muscle is not present
t/Muscle.t .................... ok
# Required executable for Bio::Tools::Run::Phylo::Phylip::Neighbor is not present
t/Neighbor.t .................. ok
# Required executable for Bio::Tools::Run::Newbler is not present
t/Newbler.t ................... ok
# Required executable for Bio::Tools::Run::Phylo::Njtree::Best is not present
t/Njtree.t .................... ok
# Required executable for Bio::Tools::Run::Phylo::PAML::Codeml is not present
t/PAML.t ...................... ok
# Required executable for Bio::Tools::Run::Alignment::Pal2Nal is not present
t/Pal2Nal.t ................... ok
# Required executable for Bio::Tools::Run::Phylo::Phast::PhastCons is not present
t/PhastCons.t ................. ok
# Required executable for Bio::Tools::Run::Phrap is not present
t/Phrap.t ..................... ok
# Required executable for Bio::Tools::Run::Phylo::Phyml is not present
t/Phyml.t ..................... ok
# Required executable for Bio::Tools::Run::Primate is not present
t/Primate.t ................... ok
# Required executable for Bio::Tools::Run::Primer3 is not present
t/Primer3.t ................... ok
# Required executable for Bio::Tools::Run::Prints is not present
t/Prints.t .................... ok
# Required executable for Bio::Tools::Run::Alignment::Probalign is not present
t/Probalign.t ................. ok
# Required executable for Bio::Tools::Run::Alignment::Probcons is not present
t/Probcons.t .................. ok
# Required executable for Bio::Tools::Run::Profile is not present
t/Profile.t ................... ok
# Required executable for Bio::Tools::Run::Promoterwise is not present
t/Promoterwise.t .............. ok
# Required executable for Bio::Tools::Run::Phylo::Phylip::ProtDist is not present
t/ProtDist.t .................. ok
# Required executable for Bio::Tools::Run::Phylo::Phylip::ProtPars is not present
t/ProtPars.t .................. ok
# Required executable for Bio::Tools::Run::Pseudowise is not present
t/Pseudowise.t ................ ok
# Required executable for Bio::Tools::Run::Phylo::QuickTree is not present
t/QuickTree.t ................. ok
RepeatMasker program not found as or not executable.
# Required executable for Bio::Tools::Run::RepeatMasker is not present
t/RepeatMasker.t .............. ok
# Required executable for Bio::Tools::Run::BlastPlus is not present
# Looks like you planned 65 tests but ran 63.
t/SABlastPlus.t ...............
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 2/65 subtests
(less 59 skipped subtests: 4 okay)
# Required executable for Bio::Tools::Run::Phylo::SLR is not present
t/SLR.t ....................... ok
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: Can't find executable for 'samtools'; can't continue
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/trushel/perl/perl589th/lib/site_perl/5.8.9/Bio/Root/Root.pm:472
STACK: Bio::Tools::Run::WrapperBase::_run /home/trushel/perl/perl589th/lib/site_perl/5.8.9/Bio/Tools/Run/WrapperBase/CommandExts.pm:974
STACK: Bio::Tools::Run::Samtools::run /home/trushel/cpan/build/5.8.9-th/BioPerl-Run-1.006900-cBE9Nt/blib/lib/Bio/Tools/Run/Samtools.pm:176
STACK: t/Samtools.t:71
-----------------------------------------------------------
# Looks like you planned 40 tests but ran 24.
# Looks like your test exited with 2 just after 24.
t/Samtools.t ..................
Dubious, test returned 2 (wstat 512, 0x200)
Failed 16/40 subtests
# Required executable for Bio::Tools::Run::Seg is not present
t/Seg.t ....................... ok
# Required executable for Bio::Tools::Run::Phylo::Semphy is not present
t/Semphy.t .................... ok
# Required executable for Bio::Tools::Run::Phylo::Phylip::SeqBoot is not present
t/SeqBoot.t ................... ok
# Required executable for Bio::Tools::Run::Signalp is not present
t/Signalp.t ................... ok
# Required executable for Bio::Tools::Run::Alignment::Sim4 is not present
t/Sim4.t ...................... ok
# Required executable for Bio::Tools::Run::Simprot is not present
t/Simprot.t ................... ok
t/SoapEU-function.t ........... skipped: Valid email not provided; required for tests
# NOTE: No network access required for these tests; all are local file-based.
t/SoapEU-unit.t ............... ok
# Required executable for Bio::Tools::Run::Alignment::StandAloneFasta is not present
t/StandAloneFasta.t ........... ok
# Required executable for Bio::Tools::Run::Alignment::TCoffee is not present
t/TCoffee.t ................... ok
# Required executable for Bio::Tools::Run::TigrAssembler is not present
# Required executable for Bio::Tools::Run::TigrAssembler is not present
t/TigrAssembler.t ............. ok
# Required executable for Bio::Tools::Run::Tmhmm is not present
t/Tmhmm.t ..................... ok
t/TribeMCL.t .................. ok
# Vista.jar is not in your class path:Exception in thread "main" java.lang.NoClassDefFoundError: Vista
t/Vista.t ..................... ok
# Required executable for Bio::Tools::Run::Alignment::Gmap is not present
t/gmap-run.t .................. ok
# Required executable for Bio::Tools::Run::tRNAscanSE is not present
t/tRNAscanSE.t ................ ok
Test Summary Report
-------------------
t/BEDTools.t (Wstat: 512 Tests: 0 Failed: 0)
Non-zero exit status: 2
Parse errors: No plan found in TAP output
t/BWA.t (Wstat: 512 Tests: 0 Failed: 0)
Non-zero exit status: 2
Parse errors: Bad plan. You planned 36 tests but ran 0.
t/Blat.t (Wstat: 65280 Tests: 20 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 33 tests but ran 20.
t/SABlastPlus.t (Wstat: 65280 Tests: 63 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 65 tests but ran 63.
t/Samtools.t (Wstat: 512 Tests: 24 Failed: 0)
Non-zero exit status: 2
Parse errors: Bad plan. You planned 40 tests but ran 24.
Files=80, Tests=2545, 34 wallclock secs ( 0.45 usr 0.20 sys + 16.70 cusr 2.84 csys = 20.19 CPU)
Result: FAIL
Failed 5/80 test programs. 0/2545 subtests failed.
------------------------------
PREREQUISITES
------------------------------
Prerequisite modules loaded:
requires:
Module Need Have
------------------ -------- --------
Bio::Root::Version 1.006900 1.006901
perl v5.6.1 5.008009
configure_requires:
Module Need Have
------------------ -------- --------
Module::Build 0.38 0.3800
------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------
Environment variables:
AUTOMATED_TESTING = 1
LANG = en_US.UTF-8
LANGUAGE = en
LC_COLLATE = C
LC_MONETARY = C
LC_NUMERIC = C
LC_TIME = C
PATH = /usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
PERL5LIB =
PERL5OPT =
PERL5_CPANPLUS_IS_RUNNING = 6990
PERL5_CPAN_IS_RUNNING = 6990
PERL5_CPAN_IS_RUNNING_IN_RECURSION = 2809,6990
PERL_CR_SMOKER_CURRENT = BioPerl-Run-1.006900
PERL_EXTUTILS_AUTOINSTALL = --defaultdeps
PERL_MM_USE_DEFAULT = 1
SHELL = /bin/bash
TERM = xterm
Perl special variables (and OS-specific diagnostics, for MSWin32):
$^X = /home/trushel/perl/perl589th/bin/perl
$UID/$EUID = 138375 / 138375
$GID = 5762 4 20 21 24 25 26 30 44 46 104 105 119 122 431 5762
$EGID = 5762 4 20 21 24 25 26 30 44 46 104 105 119 122 431 5762
Perl module toolchain versions installed:
Module Have
------------------- --------
CPAN 1.97_51
Cwd 3.33
ExtUtils::CBuilder 0.280202
ExtUtils::Command 1.16
ExtUtils::Install 1.54
ExtUtils::MakeMaker 6.58
ExtUtils::Manifest 1.58
ExtUtils::ParseXS 2.2206
File::Spec 3.33
Module::Build 0.3800
Module::Signature n/a
Test::Harness 3.23
Test::More 0.98
YAML 0.73
YAML::Syck 1.17
version 0.93
--
Summary of my perl5 (revision 5 version 8 subversion 9) configuration:
Platform:
osname=linux, osvers=2.6.32-33-generic, archname=x86_64-linux-thread-multi
uname='linux trushel-glaptop 2.6.32-33-generic #70-ubuntu smp thu jul 7 21:13:52 utc 2011 x86_64 gnulinux '
config_args=''
hint=recommended, useposix=true, d_sigaction=define
usethreads=define use5005threads=undef useithreads=define usemultiplicity=define
useperlio=define d_sfio=undef uselargefiles=define usesocks=undef
use64bitint=define use64bitall=define uselongdouble=undef
usemymalloc=n, bincompat5005=undef
Compiler:
cc='cc', ccflags ='-D_REENTRANT -D_GNU_SOURCE -DTHREADS_HAVE_PIDS -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64',
optimize='-O2',
cppflags='-D_REENTRANT -D_GNU_SOURCE -DTHREADS_HAVE_PIDS -fno-strict-aliasing -pipe -I/usr/local/include'
ccversion='', gccversion='4.4.3', gccosandvers=''
intsize=4, longsize=8, ptrsize=8, doublesize=8, byteorder=12345678
d_longlong=define, longlongsize=8, d_longdbl=define, longdblsize=16
ivtype='long', ivsize=8, nvtype='double', nvsize=8, Off_t='off_t', lseeksize=8
alignbytes=8, prototype=define
Linker and Libraries:
ld='cc', ldflags =' -L/usr/local/lib'
libpth=/usr/local/lib /lib /usr/lib /lib64 /usr/lib64
libs=-lnsl -ldb -ldl -lm -lcrypt -lutil -lpthread -lc
perllibs=-lnsl -ldl -lm -lcrypt -lutil -lpthread -lc
libc=/lib/libc-2.11.1.so, so=so, useshrplib=false, libperl=libperl.a
gnulibc_version='2.11.1'
Dynamic Linking:
dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags='-Wl,-E'
cccdlflags='-fPIC', lddlflags='-shared -O2 -L/usr/local/lib'
Characteristics of this binary (from libperl):
Compile-time options: MULTIPLICITY PERL_IMPLICIT_CONTEXT PERL_MALLOC_WRAP
THREADS_HAVE_PIDS USE_64_BIT_ALL USE_64_BIT_INT
USE_FAST_STDIO USE_ITHREADS USE_LARGE_FILES
USE_PERLIO USE_REENTRANT_API
Built under linux
Compiled at Aug 1 2011 07:25:20
%ENV:
PERL5LIB=""
PERL5OPT=""
PERL5_CPANPLUS_IS_RUNNING="6990"
PERL5_CPAN_IS_RUNNING="6990"
PERL5_CPAN_IS_RUNNING_IN_RECURSION="2809,6990"
PERL_CR_SMOKER_CURRENT="BioPerl-Run-1.006900"
PERL_EXTUTILS_AUTOINSTALL="--defaultdeps"
PERL_MM_USE_DEFAULT="1"
@INC:
/home/trushel/perl/perl589th/lib/5.8.9/x86_64-linux-thread-multi
/home/trushel/perl/perl589th/lib/5.8.9
/home/trushel/perl/perl589th/lib/site_perl/5.8.9/x86_64-linux-thread-multi
/home/trushel/perl/perl589th/lib/site_perl/5.8.9
.