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From: metabase:user:320bfe00-2aae-11df-837a-5e0a49663a4f
Subject: FAIL Bio-App-SELEX-RNAmotifAnalysis-0.0088 v5.16.3 GNU/Linux
Date: 2014-02-25T19:31:01Z
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 Bottoms,
This is a computer-generated report for Bio-App-SELEX-RNAmotifAnalysis-0.0088
on perl 5.16.3, created by CPAN-Reporter-1.2010.
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 '/usr/bin/make test':
PERL_DL_NONLAZY=1 /home/sand/src/perl/repoperls/installed-perls/perl/v5.16.3/127e/bin/perl "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(0, 'blib/lib', 'blib/arch')" t/*.t
t/adapter_trim.t ...... ok
t/cluster.t ........... ok
Can't locate Getopt/Long/Descriptive.pm in @INC (you may need to install the Getopt::Long::Descriptive module) (@INC contains: /tmp/loop_over_bdir-9165-7AozD5/Bio-App-SELEX-RNAmotifAnalysis-0.0088-FiyYv1/blib/lib /tmp/loop_over_bdir-9165-7AozD5/Bio-App-SELEX-RNAmotifAnalysis-0.0088-FiyYv1/blib/arch /etc/perl /usr/local/lib/perl/5.18.2 /usr/local/share/perl/5.18.2 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.18 /usr/share/perl/5.18 /usr/local/lib/site_perl .) at lib/Bio/App/SELEX/selex_covarianceSearch line 15.
BEGIN failed--compilation aborted at lib/Bio/App/SELEX/selex_covarianceSearch line 15.
# Failed test 'Successfully created script file'
# at t/covarianceSearch.t line 24.
# got: ""
# length: 0
# expected: "#round1\x{0a}/share/apps/bin/cmcalibrate test.cm\x{0a}/share"...
# length: 5089
# strings begin to differ at char 1 (line 1 column 1)
# Looks like you failed 1 test of 1.
t/covarianceSearch.t ..
Dubious, test returned 1 (wstat 256, 0x100)
Failed 1/1 subtests
Can't locate Text/LevenshteinXS.pm in @INC (you may need to install the Text::LevenshteinXS module) (@INC contains: /tmp/loop_over_bdir-9165-7AozD5/Bio-App-SELEX-RNAmotifAnalysis-0.0088-FiyYv1/blib/lib /tmp/loop_over_bdir-9165-7AozD5/Bio-App-SELEX-RNAmotifAnalysis-0.0088-FiyYv1/blib/arch /etc/perl /usr/local/lib/perl/5.18.2 /usr/local/share/perl/5.18.2 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.18 /usr/share/perl/5.18 /usr/local/lib/site_perl .) at lib/Bio/App/SELEX/RNAmotifAnalysis.pm line 7.
BEGIN failed--compilation aborted at lib/Bio/App/SELEX/RNAmotifAnalysis.pm line 7.
# Failed test 'created a config file'
# at t/create_config.t line 27.
Can't unlink('cluster.cfg'): No such file or directory at t/create_config.t line 53
# Tests were run but no plan was declared and done_testing() was not seen.
# Looks like your test exited with 2 just after 3.
t/create_config.t .....
Dubious, test returned 2 (wstat 512, 0x200)
Failed 1/3 subtests
(less 2 skipped subtests: 0 okay)
Can't locate Text/LevenshteinXS.pm in @INC (you may need to install the Text::LevenshteinXS module) (@INC contains: /tmp/loop_over_bdir-9165-7AozD5/Bio-App-SELEX-RNAmotifAnalysis-0.0088-FiyYv1/blib/lib /tmp/loop_over_bdir-9165-7AozD5/Bio-App-SELEX-RNAmotifAnalysis-0.0088-FiyYv1/blib/arch /etc/perl /usr/local/lib/perl/5.18.2 /usr/local/share/perl/5.18.2 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.18 /usr/share/perl/5.18 /usr/local/lib/site_perl .) at lib/Bio/App/SELEX/RNAmotifAnalysis.pm line 7.
BEGIN failed--compilation aborted at lib/Bio/App/SELEX/RNAmotifAnalysis.pm line 7.
read_file 'batch_1.dir/batch_1' - sysopen: No such file or directory at t/run.t line 27.
t/run.t ...............
Dubious, test returned 2 (wstat 512, 0x200)
No subtests run
Test Summary Report
-------------------
t/covarianceSearch.t (Wstat: 256 Tests: 1 Failed: 1)
Failed test: 1
Non-zero exit status: 1
t/create_config.t (Wstat: 512 Tests: 3 Failed: 1)
Failed test: 3
Non-zero exit status: 2
Parse errors: No plan found in TAP output
t/run.t (Wstat: 512 Tests: 0 Failed: 0)
Non-zero exit status: 2
Parse errors: No plan found in TAP output
Files=5, Tests=26, 1 wallclock secs ( 0.03 usr 0.00 sys + 0.46 cusr 0.08 csys = 0.57 CPU)
Result: FAIL
Failed 3/5 test programs. 2/26 subtests failed.
make: *** [test_dynamic] Error 2
------------------------------
PREREQUISITES
------------------------------
Prerequisite modules loaded:
requires:
Module Need Have
------------------------- ---- --------
autodie 2.0 2.23
Config::Tiny 0 2.20
Getopt::Long::Descriptive 0 0.096
List::MoreUtils 0 0.33
Text::LevenshteinXS 0.03 0.03
build_requires:
Module Need Have
------------------------- ---- --------
Data::Section 0 0.200005
File::Slurp 0 9999.19
Test::LongString 0 0.15
Test::More 0.96 1.001002
configure_requires:
Module Need Have
------------------------- ---- --------
ExtUtils::MakeMaker 6.30 6.90
------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------
Environment variables:
AUTOMATED_TESTING = 1
LANG = en_US.UTF-8
LANGUAGE = en_US:en
PATH = /usr/lib/ccache:/home/sand/bin:/usr/local/bin:/usr/bin:/bin:/usr/bin/X11:/usr/games:/usr/local/perl/bin:/usr/X11/bin:/sbin:/usr/sbin
PERL5LIB =
PERL5OPT =
PERL5_CPANPLUS_IS_RUNNING = 9166
PERL5_CPAN_IS_RUNNING = 9166
PERL_MM_USE_DEFAULT = 1
SHELL = /usr/bin/zsh
TERM = screen
Perl special variables (and OS-specific diagnostics, for MSWin32):
$^X = /home/sand/src/perl/repoperls/installed-perls/perl/v5.16.3/127e/bin/perl
$UID/$EUID = 1005 / 1005
$GID = 1005 1005
$EGID = 1005 1005
Perl module toolchain versions installed:
Module Have
------------------- --------
CPAN 2.00
CPAN::Meta 2.133380
Cwd 3.40
ExtUtils::CBuilder 0.280212
ExtUtils::Command 1.17
ExtUtils::Install 1.58
ExtUtils::MakeMaker 6.90
ExtUtils::Manifest 1.61
ExtUtils::ParseXS 3.22
File::Spec 3.40
JSON 2.90
JSON::PP 2.27203
Module::Build 0.4205
Module::Signature 0.73
Parse::CPAN::Meta 1.4413
Test::Harness 3.30
Test::More 1.001002
YAML 0.90
YAML::Syck 1.27
version 0.9908
--
Summary of my perl5 (revision 5 version 16 subversion 3) configuration:
Commit id: fd04d42d38f4751b981eb6e9213ee1ab8ef11ea6
Platform:
osname=linux, osvers=3.12-1-amd64, archname=x86_64-linux-ld
uname='linux k83 3.12-1-amd64 #1 smp debian 3.12.6-2 (2013-12-29) x86_64 gnulinux '
config_args='-Dprefix=/home/sand/src/perl/repoperls/installed-perls/perl/v5.16.3/127e -Dmyhostname=k83 -Dinstallusrbinperl=n -Uversiononly -Dusedevel -des -Ui_db -Uuseithreads -Duselongdouble -DDEBUGGING=-g'
hint=recommended, useposix=true, d_sigaction=define
useithreads=undef, usemultiplicity=undef
useperlio=define, d_sfio=undef, uselargefiles=define, usesocks=undef
use64bitint=define, use64bitall=define, uselongdouble=define
usemymalloc=n, bincompat5005=undef
Compiler:
cc='cc', ccflags ='-fno-strict-aliasing -pipe -fstack-protector -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64',
optimize='-O2 -g',
cppflags='-fno-strict-aliasing -pipe -fstack-protector -I/usr/local/include'
ccversion='', gccversion='4.8.2', 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='cc', ldflags =' -fstack-protector -L/usr/local/lib'
libpth=/usr/local/lib /lib/x86_64-linux-gnu /lib/../lib /usr/lib/x86_64-linux-gnu /usr/lib/../lib /lib /usr/lib
libs=-lnsl -lgdbm -ldb -ldl -lm -lcrypt -lutil -lc -lgdbm_compat
perllibs=-lnsl -ldl -lm -lcrypt -lutil -lc
libc=, so=so, useshrplib=false, libperl=libperl.a
gnulibc_version='2.17'
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: HAS_TIMES PERLIO_LAYERS PERL_DONT_CREATE_GVSV
PERL_MALLOC_WRAP PERL_PRESERVE_IVUV PERL_USE_DEVEL
USE_64_BIT_ALL USE_64_BIT_INT USE_LARGE_FILES
USE_LOCALE USE_LOCALE_COLLATE USE_LOCALE_CTYPE
USE_LOCALE_NUMERIC USE_LONG_DOUBLE USE_PERLIO
USE_PERL_ATOF
Built under linux
Compiled at Jan 19 2014 13:45:03
%ENV:
PERL5LIB=""
PERL5OPT=""
PERL5_CPANPLUS_IS_RUNNING="9166"
PERL5_CPAN_IS_RUNNING="9166"
PERL_MM_USE_DEFAULT="1"
@INC:
/home/sand/src/perl/repoperls/installed-perls/perl/v5.16.3/127e/lib/site_perl/5.16.3/x86_64-linux-ld
/home/sand/src/perl/repoperls/installed-perls/perl/v5.16.3/127e/lib/site_perl/5.16.3
/home/sand/src/perl/repoperls/installed-perls/perl/v5.16.3/127e/lib/5.16.3/x86_64-linux-ld
/home/sand/src/perl/repoperls/installed-perls/perl/v5.16.3/127e/lib/5.16.3
.