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FAIL Bio-Prospect-1.04 x86_64-linux-thread-multi-ld 2.6.22.10
From:
imacat
Date:
March 21, 2008 03:38
Subject:
FAIL Bio-Prospect-1.04 x86_64-linux-thread-multi-ld 2.6.22.10
This distribution has been tested as part of the cpan-testers
effort to test as many new uploads to CPAN as possible. See
http://testers.cpan.org/
Please cc any replies to cpan-testers@perl.org to keep other
test volunteers informed and to prevent any duplicate effort.
--
Dear Reece Hart,
This is a computer-generated report for Bio-Prospect-1.04
on perl 5.10.0, created by CPAN-Reporter-1.12.
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://cpantest.grango.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 '/usr/bin/make test':
PERL_DL_NONLAZY=1 /opt/perl/5.10.0/bin/perl "-MExtUtils::Command::MM" "-e" "test_harness(0, 'blib/lib', 'blib/arch')" t/*.t
t/Init.............
# Failed test 'PROSPECT_PATH (/apps/compbio/i686-linux-2.4/opt/prospect) valid'
# at t/Init.t line 16.
# Failed test 'PDB_PATH (/apps/compbio/share/pdb) valid'
# at t/Init.t line 17.
# Failed test 'MVIEW_APP () executable'
# at t/Init.t line 18.
# Looks like you failed 3 tests of 3.
Dubious, test returned 3 (wstat 768, 0x300)
Failed 3/3 subtests
t/LocalClient......! Bio::Prospect::Exception occurred: PROSPECT_PATH is not set correctly
Detail: PROSPECT_PATH (/apps/compbio/i686-linux-2.4/opt/prospect}) is not a
valid directory
Advice: Check your prospect installation and set PROSPECT_PATH in
Bio::Prospect::Init or as an environment variable
# Looks like you planned 40 tests but only ran 4.
# Looks like your test died just after 4.
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 36/40 subtests
t/Thread...........ok
Test Summary Report
-------------------
t/Init.t (Wstat: 768 Tests: 3 Failed: 3)
Failed tests: 1-3
Non-zero exit status: 3
t/LocalClient.t (Wstat: 65280 Tests: 4 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 40 tests but ran 4.
Files=3, Tests=109, 1 wallclock secs ( 0.04 usr 0.00 sys + 0.56 cusr 0.06 csys = 0.66 CPU)
Result: FAIL
Failed 2/3 test programs. 3/109 subtests failed.
make: *** [test_dynamic] Error 255
------------------------------
PREREQUISITES
------------------------------
Prerequisite modules loaded:
requires:
Module Need Have
-------------------------------- ------ --------
Bio::Align::AlignI 0 0
Bio::AlignIO 0 0
Bio::AnnotatableI 0 0
Bio::Annotation::Collection 0 0
Bio::Annotation::SimpleValue 0 0
Bio::Annotation::TypeManager 0 0
Bio::AnnotationCollectionI 0 0
Bio::AnnotationI 0 0
Bio::DescribableI 0 0
Bio::FeatureHolderI 0 0
Bio::IdentifiableI 0 0
Bio::LocatableSeq 0 0
Bio::Location::Atomic 0 0
Bio::Location::CoordinatePolicyI 0 0
Bio::Location::Fuzzy 0 0
Bio::Location::FuzzyLocationI 0 0
Bio::Location::Simple 0 0
Bio::Location::WidestCoordPolicy 0 0
Bio::LocationI 0 0
Bio::PrimarySeq 0 0
Bio::PrimarySeqI 0 0
Bio::RangeI 0 0
Bio::Root::Exception 0 0
Bio::Root::IO 0 0
Bio::Root::Root 1 1
Bio::Root::RootI 1 1
Bio::Seq 1.1 1.1
Bio::SeqI 0 0
Bio::SeqUtils 0 0
Bio::SimpleAlign 0 0
Bio::Structure::Chain 0 0
Bio::Structure::Entry 0 0
Bio::Structure::IO 0 0
Bio::Structure::Model 0 0
Bio::Structure::StructureI 0 0
Bio::Symbol::Alphabet 0 0
Bio::Symbol::AlphabetI 0 0
Bio::Symbol::ProteinAlphabet 0 0
Bio::Symbol::Symbol 0 0
Bio::Symbol::SymbolI 0 0
Bio::Tools::CodonTable 0 0
Bio::Tools::IUPAC 0 0
Carp::Assert 0.17 0.20
Data::Dumper 2.121 2.121_14
Error 0.15 0.17012
IO::Scalar 2.104 2.110
IO::String 1.02 1.08
IO::WrapTie 2.102 2.110
SOAP::Lite 0.55 0.71
URI 1.27 1.35
URI::Escape 3.21 3.28
XML::Simple 2.09 2.18
------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------
Environment variables:
AUTOMATED_TESTING = 1
LANG = zh_TW
LANGUAGE = zh_TW
LC_ALL = zh_TW
LC_COLLATE = zh_TW
LC_CTYPE = zh_TW
LC_MESSAGES = zh_TW
LC_MONETARY = zh_TW
LC_NUMERIC = zh_TW
LC_TIME = zh_TW
PATH = /home/imacat/bin:/bin:/usr/bin:/opt/java/bin:/usr/local/bin
PERL5LIB = /home/imacat/.cpan/build/IO-String-1.08-OFSmo5/blib/arch:/home/imacat/.cpan/build/IO-String-1.08-OFSmo5/blib/lib:/home/imacat/.cpan/build/SOAP-Lite-0.71-rhBi4k/blib/arch:/home/imacat/.cpan/build/SOAP-Lite-0.71-rhBi4k/blib/lib:/home/imacat/.cpan/build/Error-0.17012-5Exryz/blib/arch:/home/imacat/.cpan/build/Error-0.17012-5Exryz/blib/lib:/home/imacat/.cpan/build/XML-Simple-2.18-Cru9he/blib/arch:/home/imacat/.cpan/build/XML-Simple-2.18-Cru9he/blib/lib:/home/imacat/.cpan/build/XML-SAX-Expat-0.39-EvGTCF/blib/arch:/home/imacat/.cpan/build/XML-SAX-Expat-0.39-EvGTCF/blib/lib:/home/imacat/.cpan/build/XML-Parser-2.36-3befWy/blib/arch:/home/imacat/.cpan/build/XML-Parser-2.36-3befWy/blib/lib:/home/imacat/.cpan/build/XML-SAX-Base-1.02-bT8mhy/blib/arch:/home/imacat/.cpan/build/XML-SAX-Base-1.02-bT8mhy/blib/lib:/home/imacat/.cpan/build/XML-SAX-0.16-ifYdc2/blib/arch:/home/imacat/.cpan/build/XML-SAX-0.16-ifYdc2/blib/lib:/home/imacat/.cpan/build/XML-NamespaceSupport-1.09-HmfdCn/!
blib/arch:/home/imacat/.cpan/build/XML-NamespaceSupport-1.09-HmfdCn/blib/lib:/home/imacat/.cpan/build/IO-stringy-2.110-PYvbkf/blib/arch:/home/imacat/.cpan/build/IO-stringy-2.110-PYvbkf/blib/lib:/home/imacat/.cpan/build/bioperl-1.2.3-nsAemm/blib/arch:/home/imacat/.cpan/build/bioperl-1.2.3-nsAemm/blib/lib:/home/imacat/.cpan/build/Carp-Assert-0.20-rrSnLQ/blib/arch:/home/imacat/.cpan/build/Carp-Assert-0.20-rrSnLQ/blib/lib:/home/imacat/lib/perl5
PERL5_CPANPLUS_IS_RUNNING = 17614
PERL5_CPAN_IS_RUNNING = 17614
PERL_MM_USE_DEFAULT = 1
SHELL = /bin/zsh
TERM = xterm
Perl special variables (and OS-specific diagnostics, for MSWin32):
$^X = /opt/perl/5.10.0/bin/perl
$UID/$EUID = 1000 / 1000
$GID = 100 0 4 6 20 24 25 29 34 38 40 44 46 50 100 104 1000
$EGID = 100 0 4 6 20 24 25 29 34 38 40 44 46 50 100 104 1000
Perl module toolchain versions installed:
Module Have
------------------- ---------
CPAN 1.9205
Cwd 3.2701
ExtUtils::CBuilder 0.22
ExtUtils::Command 1.14
ExtUtils::Install 1.50
ExtUtils::MakeMaker 6.44
ExtUtils::Manifest 1.51_01
ExtUtils::ParseXS 2.19
File::Spec 3.2701
Module::Build 0.2808_01
Module::Signature 0.55
Test::Harness 3.10
Test::More 0.78
YAML 0.66
YAML::Syck n/a
version 0.74
--
Summary of my perl5 (revision 5 version 10 subversion 0) configuration:
Platform:
osname=linux, osvers=2.6.22.10, archname=x86_64-linux-thread-multi-ld
uname='linux rinse 2.6.22.10 #1 smp tue nov 20 02:36:22 cst 2007 x86_64 gnulinux '
config_args='-d -Dusethreads -Dcc=gcc -Duselongdouble -Doptimize=-g -O3 -Duse64bitint -Duse64bitall -Dprefix=/opt/perl/5.10.0 -Dd_dosuid -Dinc_version_list=none -Duseshrplib=true -Dcf_email=imacat@mail.imacat.idv.tw'
hint=recommended, useposix=true, d_sigaction=define
useithreads=define, usemultiplicity=define
useperlio=define, d_sfio=undef, uselargefiles=define, usesocks=undef
use64bitint=define, use64bitall=define, uselongdouble=define
usemymalloc=n, bincompat5005=undef
Compiler:
cc='gcc', ccflags ='-D_REENTRANT -D_GNU_SOURCE -DDEBUGGING -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64',
optimize='-g -O3',
cppflags='-D_REENTRANT -D_GNU_SOURCE -DDEBUGGING -fno-strict-aliasing -pipe -I/usr/local/include'
ccversion='', gccversion='4.1.2 20061115 (prerelease) (Debian 4.1.1-21)', 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='long double', nvsize=16, Off_t='off_t', lseeksize=8
alignbytes=16, prototype=define
Linker and Libraries:
ld='gcc', ldflags =' -L/usr/local/lib'
libpth=/usr/local/lib /lib /usr/lib /lib64 /usr/lib64
libs=-lnsl -lgdbm -ldb -ldl -lm -lcrypt -lutil -lpthread -lc
perllibs=-lnsl -ldl -lm -lcrypt -lutil -lpthread -lc
libc=/lib/libc-2.3.6.so, so=so, useshrplib=true, libperl=libperl.so
gnulibc_version='2.3.6'
Dynamic Linking:
dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags='-Wl,-E -Wl,-rpath,/opt/perl/5.10.0/lib/5.10.0/x86_64-linux-thread-multi-ld/CORE'
cccdlflags='-fPIC', lddlflags='-shared -g -O3 -L/usr/local/lib'
-
FAIL Bio-Prospect-1.04 x86_64-linux-thread-multi-ld 2.6.22.10
by imacat