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FAIL Bio-NEXUS-0.69b i686-linux-64int 2.6.22-1-k7
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From:
andreas.koenig.gmwojprw
Date:
April 23, 2008 15:59
Subject:
FAIL Bio-NEXUS-0.69b i686-linux-64int 2.6.22-1-k7
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/
--
Dear Thomas Hladish,
This is a computer-generated report for Bio-NEXUS-0.69b
on perl 5.10.0 patch 33443, created by CPAN-Reporter-1.1404.
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 /home/src/perl/repoperls/installed-perls/maint-5.10/pJQOW0w/perl-5.10.0@33443/bin/perl "-MExtUtils::Command::MM" "-e" "test_harness(0, 'blib/lib', 'blib/arch')" t/*.t
t/_perl_module-loading....................ok
t/_perl_perlpod...........................ok
t/_perl_podcoverage.......................ok
t/assumptionsblock_options................ok
t/assumptionsblock_wtset-scores...........ok
t/block_link-and-title....................ok
t/charactersblock_methods-01..............ok
t/charactersblock_methods-02..............ok
t/matrix_character-state-frequency........ok
t/matrix_charactersblock-interleave.......ok
t/matrix_historyblock-probab-distrib......ok
t/matrix_polymorphic-and-uncertain........ok
t/nexus_add-otu-clone.....................WARN Bio::NEXUS::add_otu_clone [$PREFIX/Bio/NEXUS.pm, 797] - not fully implemented!
Use of uninitialized value $_ in concatenation (.) or string at lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at lib/Bio/NEXUS/Util/Exceptions.pm line 64.
WARN Bio::NEXUS::add_otu_clone [$PREFIX/Bio/NEXUS.pm, 797] - not fully implemented!
Use of uninitialized value $_ in concatenation (.) or string at lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at lib/Bio/NEXUS/Util/Exceptions.pm line 64.
WARN Bio::NEXUS::add_otu_clone [$PREFIX/Bio/NEXUS.pm, 797] - not fully implemented!
Undefined subroutine &main::set called at t/nexus_add-otu-clone.t line 59.
# Looks like your test died just after 4.
Dubious, test returned 255 (wstat 65280, 0xff00)
All 4 subtests passed
t/nexus_block-level-commands..............ok
t/nexus_taxa-labels-quoted................ok
t/nexus_taxa-labels-squarebrackets........ok
t/nexus_taxa-labels.......................ok
t/nexus_wrong_format......................Use of uninitialized value $_ in concatenation (.) or string at /home/sand/.cpan/build/Bio-NEXUS-0.69-3E5YtP/blib/lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at /home/sand/.cpan/build/Bio-NEXUS-0.69-3E5YtP/blib/lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at /home/sand/.cpan/build/Bio-NEXUS-0.69-3E5YtP/blib/lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at /home/sand/.cpan/build/Bio-NEXUS-0.69-3E5YtP/blib/lib/Bio/NEXUS/Util/Exceptions.pm line 64.
ok
t/nhxcmd_parsing..........................ok
t/notesblock_methods......................skipped: The notes block implementation is not complete
t/tree_equals.............................ok
t/tree_methods-01.........................ok
t/tree_methods-02.........................ok
t/tree_parsing............................ok
t/tree_support-values.....................ok
t/treesblock_methods......................Use of uninitialized value $_ in concatenation (.) or string at lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at lib/Bio/NEXUS/Util/Exceptions.pm line 64.
ok
t/uncat_clone_methods.....................ok
t/uncat_datablock_clustalw................ok
t/uncat_equals_methods....................ok
t/uncat_excessive_whitespace..............ok
t/uncat_ntax-nchar-dimensions.............Use of uninitialized value $_ in concatenation (.) or string at lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at lib/Bio/NEXUS/Util/Exceptions.pm line 64.
ok
t/uncat_object-file-equality..............ok
t/uncat_shared-commands...................ok
t/uncat_todo..............................ok
t/uncat_write.............................ok
Test Summary Report
-------------------
t/nexus_add-otu-clone.t (Wstat: 65280 Tests: 4 Failed: 0)
Non-zero exit status: 255
t/nexus_wrong_format.t (Wstat: 0 Tests: 1 Failed: 0)
TODO passed: 1
t/uncat_ntax-nchar-dimensions.t (Wstat: 0 Tests: 4 Failed: 0)
TODO passed: 3
Files=35, Tests=492, 18 wallclock secs ( 0.72 usr 0.07 sys + 15.69 cusr 0.75 csys = 17.23 CPU)
Result: FAIL
Failed 1/35 test programs. 0/492 subtests failed.
make: *** [test_dynamic] Fehler 255
------------------------------
PREREQUISITES
------------------------------
Prerequisite modules loaded:
requires:
Module Need Have
---------- ---- ----
Test::More 0 0.80
------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------
Environment variables:
AUTOMATED_TESTING = 1
LANG = de_DE.UTF-8
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 = 24488
PERL5_CPAN_IS_RUNNING = 24488
PERL_MM_USE_DEFAULT = 1
SHELL = /usr/bin/zsh
TERM = screen
Perl special variables (and OS-specific diagnostics, for MSWin32):
$^X = /home/src/perl/repoperls/installed-perls/maint-5.10/pJQOW0w/perl-5.10.0@33443/bin/perl
$UID/$EUID = 1005 / 1005
$GID = 1005 1005
$EGID = 1005 1005
Perl module toolchain versions installed:
Module Have
------------------- ---------
CPAN 1.92_60
Cwd 3.2701
ExtUtils::CBuilder 0.23
ExtUtils::Command 1.14
ExtUtils::Install 1.45
ExtUtils::MakeMaker 6.44
ExtUtils::Manifest 1.51_01
ExtUtils::ParseXS 2.18_02
File::Spec 3.2701
Module::Build 0.2808_01
Module::Signature 0.55
Test::Harness 3.10
Test::More 0.80
YAML 0.66
YAML::Syck 1.04
version 0.74
--
Summary of my perl5 (revision 5 version 10 subversion 0 patch 33443) configuration:
Platform:
osname=linux, osvers=2.6.22-1-k7, archname=i686-linux-64int
uname='linux k75 2.6.22-1-k7 #1 smp sun jul 29 15:15:55 utc 2007 i686 gnulinux '
config_args='-Dprefix=/home/src/perl/repoperls/installed-perls/maint-5.10/pJQOW0w/perl-5.10.0@33443 -Dinstallusrbinperl=n -Uversiononly -Dusedevel -des -Ui_db -Doptimize=-g -Duse64bitint'
hint=recommended, useposix=true, d_sigaction=define
useithreads=undef, usemultiplicity=undef
useperlio=define, d_sfio=undef, uselargefiles=define, usesocks=undef
use64bitint=define, use64bitall=undef, uselongdouble=undef
usemymalloc=n, bincompat5005=undef
Compiler:
cc='cc', ccflags ='-DDEBUGGING -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64',
optimize='-g',
cppflags='-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=4, ptrsize=4, doublesize=8, byteorder=12345678
d_longlong=define, longlongsize=8, d_longdbl=define, longdblsize=12
ivtype='long long', ivsize=8, nvtype='double', nvsize=8, Off_t='off_t', lseeksize=8
alignbytes=4, prototype=define
Linker and Libraries:
ld='cc', ldflags =' -L/usr/local/lib'
libpth=/usr/local/lib /lib /usr/lib /usr/lib64
libs=-lnsl -lgdbm -ldb -ldl -lm -lcrypt -lutil -lc
perllibs=-lnsl -ldl -lm -lcrypt -lutil -lc
libc=/lib/libc-2.7.so, so=so, useshrplib=false, libperl=libperl.a
gnulibc_version='2.7'
Dynamic Linking:
dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags='-Wl,-E'
cccdlflags='-fPIC', lddlflags='-shared -g -L/usr/local/lib'
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