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From: metabase:user:30dda8bc-2aae-11df-837a-5e0a49663a4f
Subject: FAIL Data-Babel-Client-0.02 v5.10.1 GNU/Linux
Date: 2011-02-09T07:23:49Z
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 Victor Cassen,
This is a computer-generated report for Data-Babel-Client-0.02
on perl 5.10.1, 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':
# Testing Data::Babel::Client 0.02, Perl 5.010001, /usr/bin/perl
t/00-load.t ............... ok
# Failed test 'found protein_uniprot_symbol'
# at t/10-test_idtypes.t line 39.
# Failed test 'found pathway_nature_name'
# at t/10-test_idtypes.t line 39.
# Failed test 'found pathway_reactome_id'
# at t/10-test_idtypes.t line 39.
# Failed test 'found pathway_reactome_title'
# at t/10-test_idtypes.t line 39.
# Failed test 'found protein_ncbi_genbank'
# at t/10-test_idtypes.t line 39.
# Failed test 'found pathway_nature_title'
# at t/10-test_idtypes.t line 39.
# Failed test 'found pathway_kegg_id'
# at t/10-test_idtypes.t line 39.
# Failed test 'found sequence_agilent'
# at t/10-test_idtypes.t line 39.
# Failed test 'found gene_rgd'
# at t/10-test_idtypes.t line 39.
# Failed test 'found transcript_ncbi_genbank'
# at t/10-test_idtypes.t line 39.
# Failed test 'found probe_agilent'
# at t/10-test_idtypes.t line 39.
# Failed test 'found transcript_ncbi_genbank_gi'
# at t/10-test_idtypes.t line 39.
# Failed test 'found gene_mgi'
# at t/10-test_idtypes.t line 39.
# Failed test 'found protein_ncbi_genbank_gi'
# at t/10-test_idtypes.t line 39.
# Failed test 'found protein_uniprot_description'
# at t/10-test_idtypes.t line 39.
# Failed test 'found pathway_kegg_title'
# at t/10-test_idtypes.t line 39.
# Failed test 'found publication_pubmed'
# at t/10-test_idtypes.t line 39.
# Failed test 'found pathway_biocarta_title'
# at t/10-test_idtypes.t line 39.
# Failed test 'found mutation_cosmic_mutated'
# at t/10-test_idtypes.t line 39.
# Failed test 'found chip_agilent'
# at t/10-test_idtypes.t line 39.
# Looks like you failed 20 tests of 77.
t/10-test_idtypes.t .......
Dubious, test returned 20 (wstat 5120, 0x1400)
Failed 20/77 subtests
t/11-test_translate.t ..... ok
t/12-test_missing_args.t .. ok
t/13-test_bad_args.t ...... ok
t/manifest.t .............. skipped: Author tests not required for installation
t/pod-coverage.t .......... skipped: Test::Pod::Coverage 1.08 required for testing POD coverage
t/pod.t ................... ok
Test Summary Report
-------------------
t/10-test_idtypes.t (Wstat: 5120 Tests: 77 Failed: 20)
Failed tests: 2-3, 10-12, 15, 18-19, 26, 37-38, 45, 50
53, 56-57, 60, 65, 68, 77
Non-zero exit status: 20
Files=8, Tests=119, 15 wallclock secs ( 0.08 usr 0.02 sys + 1.69 cusr 0.25 csys = 2.04 CPU)
Result: FAIL
Failed 1/8 test programs. 20/119 subtests failed.
------------------------------
PREREQUISITES
------------------------------
Prerequisite modules loaded:
build_requires:
Module Need Have
--------------------- ---- ------
Carp 0 1.11
Class::AutoClass 1.54 1.54
Data::Dumper 0 2.128
HTTP::Request::Common 0 5.824
JSON 0 2.50
LWP::UserAgent 0 5.835
Test::More 0 0.96
configure_requires:
Module Need Have
--------------------- ---- ------
Module::Build 0.36 0.3624
------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------
Environment variables:
AUTOMATED_TESTING = 1
LANG = en_US.UTF-8
LANGUAGE = en_US:en
LC_MESSAGES = en_US.utf8
LD_LIBRARY_PATH = :/usr/lib/jni
PATH = /home/bq_cdavis/perl5/perlbrew/bin:/home/bq_cdavis/scripts:/home/bq_cdavis/admin:/home/bq_cdavis/usr/bin:/home/bq_cdavis/bin:/usr/local/bin:/usr/local/sbin:/bin:/sbin:/usr/bin:/usr/sbin:/usr/X11R6/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/bq_cdavis/.eclipse/org.eclipse.platform*/plugins/com.google.appengine.eclipse.sdkbundle*/appengine-java-sdk*/bin
PATH_WITHOUT_PERLBREW = /home/bq_cdavis/scripts:/home/bq_cdavis/admin:/home/bq_cdavis/usr/bin:/home/bq_cdavis/bin:/usr/local/bin:/usr/local/sbin:/bin:/sbin:/usr/bin:/usr/sbin:/usr/X11R6/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/bq_cdavis/.eclipse/org.eclipse.platform*/plugins/com.google.appengine.eclipse.sdkbundle*/appengine-java-sdk*/bin
PERL5LIB = /home/bq_cdavis/.cpan/build/Class-AutoClass-1.54-HlWW5s/blib/arch:/home/bq_cdavis/.cpan/build/Class-AutoClass-1.54-HlWW5s/blib/lib:/home/bq_cdavis/.cpan/build/Hash-AutoHash-Args-1.12-3Gu89S/blib/arch:/home/bq_cdavis/.cpan/build/Hash-AutoHash-Args-1.12-3Gu89S/blib/lib:/home/bq_cdavis/.cpan/build/Hash-AutoHash-1.12-KKGWFu/blib/arch:/home/bq_cdavis/.cpan/build/Hash-AutoHash-1.12-KKGWFu/blib/lib:/home/bq_cdavis/.cpan/build/Test-Deep-0.108-bCQRgC/blib/arch:/home/bq_cdavis/.cpan/build/Test-Deep-0.108-bCQRgC/blib/lib:/home/bq_cdavis/.cpan/build/Tie-Hash-MultiValue-1.02-KiTCbB/blib/arch:/home/bq_cdavis/.cpan/build/Tie-Hash-MultiValue-1.02-KiTCbB/blib/lib:/home/bq_cdavis/.cpan/build/Tie-ToObject-0.03-0R48wz/blib/arch:/home/bq_cdavis/.cpan/build/Tie-ToObject-0.03-0R48wz/blib/lib:/home/bq_cdavis/.cpan/build/Test-use-ok-0.02-osdB_8/blib/arch:/home/bq_cdavis/.cpan/build/Test-use-ok-0.02-osdB_8/blib/lib:/home/bq_cdavis/.cpan/build/IO-stringy-2.110-m56z9r/blib/arch:/home/bq_cdavis/.cpan/build/IO-stringy-2.110-m56z9r/blib/lib:/home/bq_cdavis/scripts:/home/bq_cdavis/scrap/perl
PERL5OPT =
PERL5_CPANPLUS_IS_RUNNING = 12820
PERL5_CPAN_IS_RUNNING = 12820
PERL5_CPAN_IS_RUNNING_IN_RECURSION = 1676,12820
PERLBREW_PATH = /home/bq_cdavis/perl5/perlbrew/bin
PERLBREW_ROOT = /home/bq_cdavis/perl5/perlbrew
PERLBREW_VERSION = 0.15
PERL_CR_SMOKER_CURRENT = Data-Babel-Client-0.02
PERL_EXTUTILS_AUTOINSTALL = --defaultdeps
PERL_MM_USE_DEFAULT = 1
SHELL = /bin/bash
TERM = xterm
Perl special variables (and OS-specific diagnostics, for MSWin32):
$^X = /usr/bin/perl
$UID/$EUID = 1000 / 1000
$GID = 1000 4 20 24 46 112 120 122 1000
$EGID = 1000 4 20 24 46 112 120 122 1000
Perl module toolchain versions installed:
Module Have
------------------- --------
CPAN 1.9402
Cwd 3.33
ExtUtils::CBuilder 0.280202
ExtUtils::Command 1.16
ExtUtils::Install 1.54
ExtUtils::MakeMaker 6.56
ExtUtils::Manifest 1.56
ExtUtils::ParseXS 2.2206
File::Spec 3.33
Module::Build 0.3624
Module::Signature 0.66
Test::Harness 3.22
Test::More 0.96
YAML 0.72
YAML::Syck n/a
version 0.88
--
Summary of my perl5 (revision 5 version 10 subversion 1) configuration:
Platform:
osname=linux, osvers=2.6.24-27-server, archname=i686-linux-gnu-thread-multi
uname='linux vernadsky 2.6.24-27-server #1 smp fri mar 12 01:45:06 utc 2010 i686 gnulinux '
config_args='-Dusethreads -Duselargefiles -Dccflags=-DDEBIAN -Dcccdlflags=-fPIC -Darchname=i686-linux-gnu -Dprefix=/usr -Dprivlib=/usr/share/perl/5.10 -Darchlib=/usr/lib/perl/5.10 -Dvendorprefix=/usr -Dvendorlib=/usr/share/perl5 -Dvendorarch=/usr/lib/perl5 -Dsiteprefix=/usr/local -Dsitelib=/usr/local/share/perl/5.10.1 -Dsitearch=/usr/local/lib/perl/5.10.1 -Dman1dir=/usr/share/man/man1 -Dman3dir=/usr/share/man/man3 -Dsiteman1dir=/usr/local/man/man1 -Dsiteman3dir=/usr/local/man/man3 -Dman1ext=1 -Dman3ext=3perl -Dpager=/usr/bin/sensible-pager -Uafs -Ud_csh -Ud_ualarm -Uusesfio -Uusenm -DDEBUGGING=-g -Doptimize=-O2 -Duseshrplib -Dlibperl=libperl.so.5.10.1 -Dd_dosuid -des'
hint=recommended, useposix=true, d_sigaction=define
useithreads=define, usemultiplicity=define
useperlio=define, d_sfio=undef, uselargefiles=define, usesocks=undef
use64bitint=undef, use64bitall=undef, uselongdouble=undef
usemymalloc=n, bincompat5005=undef
Compiler:
cc='cc', ccflags ='-D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fno-strict-aliasing -pipe -fstack-protector -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64',
optimize='-O2 -g',
cppflags='-D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fno-strict-aliasing -pipe -fstack-protector -I/usr/local/include'
ccversion='', gccversion='4.5.2', gccosandvers=''
intsize=4, longsize=4, ptrsize=4, doublesize=8, byteorder=1234
d_longlong=define, longlongsize=8, d_longdbl=define, longdblsize=12
ivtype='long', ivsize=4, nvtype='double', nvsize=8, Off_t='off_t', lseeksize=8
alignbytes=4, prototype=define
Linker and Libraries:
ld='cc', ldflags =' -fstack-protector -L/usr/local/lib'
libpth=/usr/local/lib /lib /usr/lib /usr/lib64
libs=-lgdbm -lgdbm_compat -ldb -ldl -lm -lpthread -lc -lcrypt
perllibs=-ldl -lm -lpthread -lc -lcrypt
libc=/lib/libc-2.12.2.so, so=so, useshrplib=true, libperl=libperl.so.5.10.1
gnulibc_version='2.12.2'
Dynamic Linking:
dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags='-Wl,-E'
cccdlflags='-fPIC', lddlflags='-shared -O2 -g -L/usr/local/lib -fstack-protector'
Characteristics of this binary (from libperl):
Compile-time options: MULTIPLICITY PERL_DONT_CREATE_GVSV
PERL_IMPLICIT_CONTEXT PERL_MALLOC_WRAP USE_ITHREADS
USE_LARGE_FILES USE_PERLIO USE_REENTRANT_API
Locally applied patches:
DEBPKG:debian/arm_thread_stress_timeout - http://bugs.debian.org/501970 Raise the timeout of ext/threads/shared/t/stress.t to accommodate slower build hosts
DEBPKG:debian/cpan_config_path - Set location of CPAN::Config to /etc/perl as /usr may not be writable.
DEBPKG:debian/cpan_definstalldirs - Provide a sensible INSTALLDIRS default for modules installed from CPAN.
DEBPKG:debian/db_file_ver - http://bugs.debian.org/340047 Remove overly restrictive DB_File version check.
DEBPKG:debian/doc_info - Replace generic man(1) instructions with Debian-specific information.
DEBPKG:debian/enc2xs_inc - http://bugs.debian.org/290336 Tweak enc2xs to follow symlinks and ignore missing @INC directories.
DEBPKG:debian/errno_ver - http://bugs.debian.org/343351 Remove Errno version check due to upgrade problems with long-running processes.
DEBPKG:debian/extutils_hacks - Various debian-specific ExtUtils changes
DEBPKG:debian/fakeroot - Postpone LD_LIBRARY_PATH evaluation to the binary targets.
DEBPKG:debian/instmodsh_doc - Debian policy doesn't install .packlist files for core or vendor.
DEBPKG:debian/ld_run_path - Remove standard libs from LD_RUN_PATH as per Debian policy.
DEBPKG:debian/libnet_config_path - Set location of libnet.cfg to /etc/perl/Net as /usr may not be writable.
DEBPKG:debian/m68k_thread_stress - http://bugs.debian.org/495826 Disable some threads tests on m68k for now due to missing TLS.
DEBPKG:debian/mod_paths - Tweak @INC ordering for Debian
DEBPKG:debian/module_build_man_extensions - http://bugs.debian.org/479460 Adjust Module::Build manual page extensions for the Debian Perl policy
DEBPKG:debian/perl_synopsis - http://bugs.debian.org/278323 Rearrange perl.pod
DEBPKG:debian/prune_libs - http://bugs.debian.org/128355 Prune the list of libraries wanted to what we actually need.
DEBPKG:debian/use_gdbm - Explicitly link against -lgdbm_compat in ODBM_File/NDBM_File.
DEBPKG:fixes/assorted_docs - http://bugs.debian.org/443733 [384f06a] Math::BigInt::CalcEmu documentation grammar fix
DEBPKG:fixes/net_smtp_docs - http://bugs.debian.org/100195 [rt.cpan.org #36038] Document the Net::SMTP 'Port' option
DEBPKG:fixes/processPL - http://bugs.debian.org/357264 [rt.cpan.org #17224] Always use PERLRUNINST when building perl modules.
DEBPKG:debian/perlivp - http://bugs.debian.org/510895 Make perlivp skip include directories in /usr/local
DEBPKG:fixes/pod2man-index-backslash - http://bugs.debian.org/521256 Escape backslashes in .IX entries
DEBPKG:debian/disable-zlib-bundling - Disable zlib bundling in Compress::Raw::Zlib
DEBPKG:fixes/kfreebsd_cppsymbols - http://bugs.debian.org/533098 [3b910a0] Add gcc predefined macros to $Config{cppsymbols} on GNU/kFreeBSD.
DEBPKG:debian/cpanplus_definstalldirs - http://bugs.debian.org/533707 Configure CPANPLUS to use the site directories by default.
DEBPKG:debian/cpanplus_config_path - Save local versions of CPANPLUS::Config::System into /etc/perl.
DEBPKG:fixes/kfreebsd-filecopy-pipes - http://bugs.debian.org/537555 [16f708c] Fix File::Copy::copy with pipes on GNU/kFreeBSD
DEBPKG:fixes/anon-tmpfile-dir - http://bugs.debian.org/528544 [perl #66452] Honor TMPDIR when open()ing an anonymous temporary file
DEBPKG:fixes/abstract-sockets - http://bugs.debian.org/329291 [89904c0] Add support for Abstract namespace sockets.
DEBPKG:fixes/hurd_cppsymbols - http://bugs.debian.org/544307 [eeb92b7] Add gcc predefined macros to $Config{cppsymbols} on GNU/Hurd.
DEBPKG:fixes/autodie-flock - http://bugs.debian.org/543731 Allow for flock returning EAGAIN instead of EWOULDBLOCK on linux/parisc
DEBPKG:fixes/archive-tar-instance-error - http://bugs.debian.org/539355 [rt.cpan.org #48879] Separate Archive::Tar instance error strings from each other
DEBPKG:fixes/positive-gpos - http://bugs.debian.org/545234 [perl #69056] [c584a96] Fix \G crash on first match
DEBPKG:debian/devel-ppport-ia64-optim - http://bugs.debian.org/548943 Work around an ICE on ia64
DEBPKG:fixes/trie-logic-match - http://bugs.debian.org/552291 [perl #69973] [0abd0d7] Fix a DoS in Unicode processing [CVE-2009-3626]
DEBPKG:fixes/hppa-thread-eagain - http://bugs.debian.org/554218 make the threads-shared test suite more robust, fixing failures on hppa
DEBPKG:fixes/crash-on-undefined-destroy - http://bugs.debian.org/564074 [perl #71952] [1f15e67] Fix a NULL pointer dereference when looking for a DESTROY method
DEBPKG:fixes/tainted-errno - http://bugs.debian.org/574129 [perl #61976] [be1cf43] fix an errno stringification bug in taint mode
DEBPKG:fixes/safe-upgrade - http://bugs.debian.org/582978 Upgrade Safe.pm to 2.25, fixing CVE-2010-1974
DEBPKG:fixes/tell-crash - http://bugs.debian.org/578577 [f4817f3] Fix a tell() crash on bad arguments.
DEBPKG:fixes/format-write-crash - http://bugs.debian.org/579537 [perl #22977] [421f30e] Fix a crash in format/write
DEBPKG:fixes/arm-alignment - http://bugs.debian.org/289884 [f1c7503] Prevent gcc from optimizing the alignment test away on armel
DEBPKG:fixes/fcgi-test - Fix a failure in CGI/t/fast.t when FCGI is installed
DEBPKG:fixes/hurd-ccflags - http://bugs.debian.org/587901 Make hints/gnu.sh append to $ccflags rather than overriding them
DEBPKG:debian/squelch-locale-warnings - http://bugs.debian.org/508764 Squelch locale warnings in Debian package maintainer scripts
DEBPKG:fixes/lc-numeric-docs - http://bugs.debian.org/379329 [perl #78452] [903eb63] LC_NUMERIC documentation fixes
DEBPKG:fixes/lc-numeric-sprintf - http://bugs.debian.org/601549 [perl #78632] [b3fd614] Fix sprintf not to ignore LC_NUMERIC with constants
DEBPKG:fixes/concat-stack-corruption - http://bugs.debian.org/596105 [perl #78674] [e3393f5] Fix stack pointer corruption in pp_concat() with 'use encoding'
DEBPKG:fixes/cgi-multiline-header - http://bugs.debian.org/606995 [CVE-2010-2761 CVE-2010-4410 CVE-2010-4411] CGI.pm MIME boundary and multiline header vulnerabilities
DEBPKG:fixes/h2ph-gcc-4.5 - [8d66b3f] Fix h2ph and test
Built under linux
Compiled at Jan 18 2011 17:25:31
%ENV:
PERL5LIB="/home/bq_cdavis/.cpan/build/Class-AutoClass-1.54-HlWW5s/blib/arch:/home/bq_cdavis/.cpan/build/Class-AutoClass-1.54-HlWW5s/blib/lib:/home/bq_cdavis/.cpan/build/Hash-AutoHash-Args-1.12-3Gu89S/blib/arch:/home/bq_cdavis/.cpan/build/Hash-AutoHash-Args-1.12-3Gu89S/blib/lib:/home/bq_cdavis/.cpan/build/Hash-AutoHash-1.12-KKGWFu/blib/arch:/home/bq_cdavis/.cpan/build/Hash-AutoHash-1.12-KKGWFu/blib/lib:/home/bq_cdavis/.cpan/build/Test-Deep-0.108-bCQRgC/blib/arch:/home/bq_cdavis/.cpan/build/Test-Deep-0.108-bCQRgC/blib/lib:/home/bq_cdavis/.cpan/build/Tie-Hash-MultiValue-1.02-KiTCbB/blib/arch:/home/bq_cdavis/.cpan/build/Tie-Hash-MultiValue-1.02-KiTCbB/blib/lib:/home/bq_cdavis/.cpan/build/Tie-ToObject-0.03-0R48wz/blib/arch:/home/bq_cdavis/.cpan/build/Tie-ToObject-0.03-0R48wz/blib/lib:/home/bq_cdavis/.cpan/build/Test-use-ok-0.02-osdB_8/blib/arch:/home/bq_cdavis/.cpan/build/Test-use-ok-0.02-osdB_8/blib/lib:/home/bq_cdavis/.cpan/build/IO-stringy-2.110-m56z9r/blib/arch:/home/bq_cdavis/.cpan/build/IO-stringy-2.110-m56z9r/blib/lib:/home/bq_cdavis/scripts:/home/bq_cdavis/scrap/perl"
PERL5OPT=""
PERL5_CPANPLUS_IS_RUNNING="12820"
PERL5_CPAN_IS_RUNNING="12820"
PERL5_CPAN_IS_RUNNING_IN_RECURSION="1676,12820"
PERLBREW_PATH="/home/bq_cdavis/perl5/perlbrew/bin"
PERLBREW_ROOT="/home/bq_cdavis/perl5/perlbrew"
PERLBREW_VERSION="0.15"
PERL_CR_SMOKER_CURRENT="Data-Babel-Client-0.02"
PERL_EXTUTILS_AUTOINSTALL="--defaultdeps"
PERL_MM_USE_DEFAULT="1"
@INC:
/home/bq_cdavis/.cpan/build/Class-AutoClass-1.54-HlWW5s/blib/arch
/home/bq_cdavis/.cpan/build/Class-AutoClass-1.54-HlWW5s/blib/lib
/home/bq_cdavis/.cpan/build/Hash-AutoHash-Args-1.12-3Gu89S/blib/arch
/home/bq_cdavis/.cpan/build/Hash-AutoHash-Args-1.12-3Gu89S/blib/lib
/home/bq_cdavis/.cpan/build/Hash-AutoHash-1.12-KKGWFu/blib/arch
/home/bq_cdavis/.cpan/build/Hash-AutoHash-1.12-KKGWFu/blib/lib
/home/bq_cdavis/.cpan/build/Test-Deep-0.108-bCQRgC/blib/arch
/home/bq_cdavis/.cpan/build/Test-Deep-0.108-bCQRgC/blib/lib
/home/bq_cdavis/.cpan/build/Tie-Hash-MultiValue-1.02-KiTCbB/blib/arch
/home/bq_cdavis/.cpan/build/Tie-Hash-MultiValue-1.02-KiTCbB/blib/lib
/home/bq_cdavis/.cpan/build/Tie-ToObject-0.03-0R48wz/blib/arch
/home/bq_cdavis/.cpan/build/Tie-ToObject-0.03-0R48wz/blib/lib
/home/bq_cdavis/.cpan/build/Test-use-ok-0.02-osdB_8/blib/arch
/home/bq_cdavis/.cpan/build/Test-use-ok-0.02-osdB_8/blib/lib
/home/bq_cdavis/.cpan/build/IO-stringy-2.110-m56z9r/blib/arch
/home/bq_cdavis/.cpan/build/IO-stringy-2.110-m56z9r/blib/lib
/home/bq_cdavis/scripts
/home/bq_cdavis/scrap/perl
/etc/perl
/usr/local/lib/perl/5.10.1
/usr/local/share/perl/5.10.1
/usr/lib/perl5
/usr/share/perl5
/usr/lib/perl/5.10
/usr/share/perl/5.10
/usr/local/lib/site_perl
.