FAIL Bio-NEXUS-0.69b x86_64-linux 2.6.23.1-slh64-smp-32

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, created by CPAN-Reporter-1.1402. 

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 /usr/local/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!
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.
-------------------------- EXCEPTION ----------------------------
Message: Can't clone, no Clone::PP Can't locate Clone/PP.pm in @INC (@INC contains: lib /home/d/.cpan/build/Bio-NEXUS-0.69-5AEJ3p/blib/lib /home/d/.cpan/build/Bio-NEXUS-0.69-5AEJ3p/blib/arch /usr/local/lib/perl5/5.10.0/x86_64-linux /usr/local/lib/perl5/5.10.0 /usr/local/lib/perl5/site_perl/5.10.0/x86_64-linux /usr/local/lib/perl5/site_perl/5.10.0 .) at lib/Bio/NEXUS/TaxUnit.pm line 89.


An exception of type Bio::NEXUS::Util::Exceptions::ExtensionError
was thrown.

This kind of error happens when an extension module can not be
loaded.

Refer to the Bio::NEXUS::Util::Exceptions documentation for more
information.
------------------------- STACK TRACE ---------------------------
STACK: Bio::NEXUS::TaxUnit::clone('', 'Bio::NEXUS::TaxUnit=HASH(0xc964e0)') called at lib/Bio/NEXUS/CharactersBlock.pm line 341
STACK: Bio::NEXUS::CharactersBlock::add_otu_clone('', 'Bio::NEXUS::CharactersBlock=HASH(0xc91760)', 'A', 'A_clone') called at lib/Bio/NEXUS.pm line 829
STACK: Bio::NEXUS::add_otu_clone('', 'Bio::NEXUS=HASH(0xc64ff0)', 'A', 'A_clone') called at t/nexus_add-otu-clone.t line 55	
-----------------------------------------------------------------
# Looks like your test died just after 3.
 Dubious, test returned 255 (wstat 65280, 0xff00)
 All 3 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/d/.cpan/build/Bio-NEXUS-0.69-5AEJ3p/blib/lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at /home/d/.cpan/build/Bio-NEXUS-0.69-5AEJ3p/blib/lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at /home/d/.cpan/build/Bio-NEXUS-0.69-5AEJ3p/blib/lib/Bio/NEXUS/Util/Exceptions.pm line 64.
Use of uninitialized value $_ in concatenation (.) or string at /home/d/.cpan/build/Bio-NEXUS-0.69-5AEJ3p/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.....................skipped: Clone::PP not installed
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: 3 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=433,  6 wallclock secs ( 0.21 usr  0.04 sys +  5.10 cusr  0.45 csys =  5.80 CPU)
Result: FAIL
Failed 1/35 test programs. 0/433 subtests failed.
make: *** [test_dynamic] Error 255

------------------------------
PREREQUISITES
------------------------------

Prerequisite modules loaded:

requires:

    Module     Need Have
    ---------- ---- ----
    Test::More 0    0.80

------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------

Environment variables:

    AUTOMATED_TESTING = 1
    LANG = en_GB.UTF-8
    LC_ADDRESS = en_IE.utf8
    LC_COLLATE = POSIX
    LC_CTYPE = en_IE.utf8
    LC_IDENTIFICATION = en_IE.utf8
    LC_MEASUREMENT = en_IE.utf8
    LC_MESSAGES = en_IE.utf8
    LC_MONETARY = nl_NL.utf8
    LC_NAME = en_IE.utf8
    LC_NUMERIC = en_IE.utf8
    LC_PAPER = en_IE.utf8
    LC_TELEPHONE = en_IE.utf8
    LC_TIME = nl_NL.utf8
    PATH = /home/d/bin:/home/devogon/lib/blead/bin:/home/devogon/lib/blead/bin:/usr/local/bin:/usr/bin:/bin:/usr/games:/home/devogon/bin:/usr/games/bin:/usr/bin/mh:/usr/local/everything/bin:/usr/lib/surfraw:/home/devogon/bin:/usr/games/bin:/usr/bin/mh:/usr/local/everything/bin:/usr/lib/surfraw
    PERL5LIB = 
    PERL5OPT = 
    PERL5_CPANPLUS_IS_RUNNING = 16156
    PERL5_CPAN_IS_RUNNING = 16156
    PERL5_CPAN_IS_RUNNING_IN_RECURSION = 14499,16156
    PERL_CR_SMOKER_CURRENT = Bio-NEXUS-0.69b
    PERL_MM_USE_DEFAULT = 1
    PERL_TEST_POD = 1
    SHELL = /bin/bash
    TERM = screen

Perl special variables (and OS-specific diagnostics, for MSWin32):

    $^X = /usr/local/bin/perl
    $UID/$EUID = 1004 / 1004
    $GID = 1004 33 1004
    $EGID = 1004 33 1004

Perl module toolchain versions installed:

    Module              Have     
    ------------------- ---------
    CPAN                1.92_61  
    Cwd                 3.2701   
    ExtUtils::CBuilder  0.23     
    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          0.80     
    YAML                0.66     
    YAML::Syck          1.04     
    version             0.74     


--

Summary of my perl5 (revision 5 version 10 subversion 0) configuration:
  Platform:
    osname=linux, osvers=2.6.23.1-slh64-smp-32, archname=x86_64-linux
    uname='linux sanremo.defietser 2.6.23.1-slh64-smp-32 #1 smp preempt thu nov 15 17:55:06 cet 2007 x86_64 gnulinux '
    config_args='-des'
    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=undef
    usemymalloc=n, bincompat5005=undef
  Compiler:
    cc='cc', ccflags ='-fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64',
    optimize='-O2',
    cppflags='-fno-strict-aliasing -pipe -I/usr/local/include'
    ccversion='', gccversion='4.2.3 20071014 (prerelease) (Debian 4.2.2-3)', 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 -lgdbm -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 -O2 -L/usr/local/lib'

• FAIL Bio-NEXUS-0.69b x86_64-linux 2.6.23.1-slh64-smp-32 by DEVOGON