Bio-Tools-Run-Alignment-TCoffee v1.7.2 Perl 5 v5.16.3 MSWin32-x86-multi-thread

Status
Fail
From
Alexandr Ciornii (CHORNY)
Dist
Bio-Tools-Run-Alignment-TCoffee v1.7.2
Platform
Perl 5 v5.16.3 MSWin32-x86-multi-thread
Date
2017-09-16T12:32:30
ID
3962d9ef-6c02-1014-a8cc-027e283acb70
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 carandraug,

This is a computer-generated report for Bio-Tools-Run-Alignment-TCoffee-1.7.2
on perl 5.16.3, created by CPAN-Reporter-1.2018.

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 'C:\strawberry163\c\bin\dmake.exe test':

C:\strawberry163\perl\bin\perl.exe "-MExtUtils::Command::MM" "-e" "test_harness(0, 'blib\lib', 'blib\arch')" t/*.t
Use of uninitialized value $ENV{"HOME"} in string at C:\strawberry163\cpan\build\Bio-Tools-Run-Alignment-TCoffee-1.7.2-lH8KDT\blib\lib/Bio/Installer/TCoffee.pm line 21.
t/00-compile.t ........... ok
t/author-eol.t ........... skipped: these tests are for testing by the author
t/author-mojibake.t ...... skipped: these tests are for testing by the author
t/author-no-tabs.t ....... skipped: these tests are for testing by the author
t/author-pod-coverage.t .. skipped: these tests are for testing by the author
t/author-pod-syntax.t .... skipped: these tests are for testing by the author

#   Failed test 't_coffee in PATH'
#   at t/requires_external.t line 8.
# Looks like you failed 1 test of 1.
t/requires_external.t .... 
Dubious, test returned 1 (wstat 256, 0x100)
Failed 1/1 subtests 

------------- EXCEPTION: Bio::Root::Exception -------------
MSG: Cannot find executable for t_coffee. path="t_coffee.exe"
STACK: Error::throw
STACK: Bio::Root::Root::throw C:\strawberry163\cpan\build\BioPerl-1.007002-b7IsYA/blib/lib/Bio/Root/Root.pm:447
STACK: Bio::Tools::Run::WrapperBase::executable C:\strawberry163\cpan\build\BioPerl-Run-1.007002-2GbW7U/blib/lib/Bio/Tools/Run/WrapperBase.pm:340
STACK: Bio::Tools::Run::Alignment::TCoffee::version C:\strawberry163\cpan\build\Bio-Tools-Run-Alignment-TCoffee-1.7.2-lH8KDT\blib\lib/Bio/Tools/Run/Alignment/TCoffee.pm:123
STACK: t/TCoffee.t:47
-----------------------------------------------------------
# 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/TCoffee.t .............. 
Dubious, test returned 2 (wstat 512, 0x200)
All 3 subtests passed 

Test Summary Report
-------------------
t/requires_external.t  (Wstat: 256 Tests: 1 Failed: 1)
  Failed test:  1
  Non-zero exit status: 1
t/TCoffee.t            (Wstat: 512 Tests: 3 Failed: 0)
  Non-zero exit status: 2
  Parse errors: No plan found in TAP output
Files=8, Tests=6,  3 wallclock secs ( 0.07 usr +  0.11 sys =  0.18 CPU)
Result: FAIL
Failed 2/8 test programs. 1/6 subtests failed.
dmake.exe:  Error code 130, while making 'test_dynamic'

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

Prerequisite modules loaded:

requires:

    Module                            Need  Have    
    --------------------------------- ----- --------
    Bio::AlignIO                      0     0       
    Bio::Factory::ApplicationFactoryI 0     0       
    Bio::Installer::Generic           0     0       
    Bio::Root::IO                     0     0       
    Bio::Root::Root                   0     0       
    Bio::Seq                          0     0       
    Bio::SeqIO                        0     0       
    Bio::SimpleAlign                  0     0       
    Bio::Tools::Run::WrapperBase      0     0       
    Cwd                               0     3.40    
    perl                              5.006 5.016003
    strict                            0     1.07    
    utf8                              0     1.09    
    vars                              0     1.02    
    warnings                          0     1.13    

build_requires:

    Module                            Need  Have    
    --------------------------------- ----- --------
    blib                              1.01  1.06    
    Env::Path                         0.18  0.19    
    ExtUtils::MakeMaker               0     6.64    
    File::Spec                        0     3.40    
    IO::Handle                        0     1.33    
    IPC::Open3                        0     1.12    
    Test::Exception                   0     0.32    
    Test::More                        0     1.001002
    Test::Most                        0     0.33    

configure_requires:

    Module                            Need  Have    
    --------------------------------- ----- --------
    ExtUtils::MakeMaker               0     6.64    


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

Environment variables:

    AUTOMATED_TESTING = 1
    COMSPEC = C:\WINDOWS\system32\cmd.exe
    NUMBER_OF_PROCESSORS = 1
    PATH = C:\WINDOWS\system32;C:\WINDOWS;C:\WINDOWS\System32\Wbem;C:\strawberry163\c\bin;C:\strawberry163\perl\site\bin;C:\strawberry163\perl\bin
    PERL5LIB = C:\strawberry163\cpan\build\BioPerl-Run-1.007002-2GbW7U/blib/arch;C:\strawberry163\cpan\build\BioPerl-Run-1.007002-2GbW7U/blib/lib;C:\strawberry163\cpan\build\BioPerl-1.007002-b7IsYA/blib/arch;C:\strawberry163\cpan\build\BioPerl-1.007002-b7IsYA/blib/lib
    PERL5OPT = 
    PERL5_CPANPLUS_IS_RUNNING = 876
    PERL5_CPAN_IS_RUNNING = 876
    PERL5_CPAN_IS_RUNNING_IN_RECURSION = 1696,876
    PERL_CR_SMOKER_CURRENT = Bio-Tools-Run-Alignment-TCoffee-1.7.2
    PERL_CR_SMOKER_RUNONCE = 1
    PERL_EXTUTILS_AUTOINSTALL = --defaultdeps
    PERL_MM_USE_DEFAULT = 1
    PROCESSOR_IDENTIFIER = x86 Family 16 Model 5 Stepping 3, AuthenticAMD
    TEMP = C:\DOCUME~1\c\LOCALS~1\Temp
    TERM = dumb

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

    $^X = C:\strawberry163\perl\bin\perl.exe
    $UID/$EUID = 0 / 0
    $GID = 0
    $EGID = 0
    Win32::GetOSName = WinXP/.Net
    Win32::GetOSVersion = Service Pack 3, 5, 1, 2600, 2, 3, 0, 256, 1
    Win32::FsType = NTFS
    Win32::IsAdminUser = 1

Perl module toolchain versions installed:

    Module              Have    
    ------------------- --------
    CPAN                2.00    
    CPAN::Meta          2.140640
    Cwd                 3.40    
    ExtUtils::CBuilder  0.280206
    ExtUtils::Command   1.17    
    ExtUtils::Install   1.58    
    ExtUtils::MakeMaker 6.64    
    ExtUtils::Manifest  1.61    
    ExtUtils::ParseXS   3.24    
    File::Spec          3.40    
    JSON                2.90    
    JSON::PP            2.27203 
    Module::Build       0.4205  
    Module::Signature   0.70    
    Parse::CPAN::Meta   1.4414  
    Test::Harness       3.30    
    Test::More          1.001002
    YAML                0.90    
    YAML::Syck          1.24    
    version             0.9902  


--

Summary of my perl5 (revision 5 version 16 subversion 3) configuration:
   
  Platform:
    osname=MSWin32, osvers=4.0, archname=MSWin32-x86-multi-thread
    uname='Win32 strawberry-perl 5.16.3.1 #1 Tue Mar 12 13:55:20 2013 i386'
    config_args='undef'
    hint=recommended, useposix=true, d_sigaction=undef
    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='gcc', ccflags =' -s -O2 -DWIN32  -DPERL_TEXTMODE_SCRIPTS -DPERL_IMPLICIT_CONTEXT -DPERL_IMPLICIT_SYS -fno-strict-aliasing -mms-bitfields',
    optimize='-s -O2',
    cppflags='-DWIN32'
    ccversion='', gccversion='4.6.3', gccosandvers=''
    intsize=4, longsize=4, ptrsize=4, doublesize=8, byteorder=1234
    d_longlong=undef, longlongsize=8, d_longdbl=define, longdblsize=12
    ivtype='long', ivsize=4, nvtype='double', nvsize=8, Off_t='long long', lseeksize=8
    alignbytes=8, prototype=define
  Linker and Libraries:
    ld='g++', ldflags ='-s -L"C:\strawberry163\perl\lib\CORE" -L"C:\strawberry163\c\lib"'
    libpth=C:\strawberry163\c\lib C:\strawberry163\c\i686-w64-mingw32\lib
    libs=-lmoldname -lkernel32 -luser32 -lgdi32 -lwinspool -lcomdlg32 -ladvapi32 -lshell32 -lole32 -loleaut32 -lnetapi32 -luuid -lws2_32 -lmpr -lwinmm -lversion -lodbc32 -lodbccp32 -lcomctl32
    perllibs=-lmoldname -lkernel32 -luser32 -lgdi32 -lwinspool -lcomdlg32 -ladvapi32 -lshell32 -lole32 -loleaut32 -lnetapi32 -luuid -lws2_32 -lmpr -lwinmm -lversion -lodbc32 -lodbccp32 -lcomctl32
    libc=, so=dll, useshrplib=true, libperl=libperl516.a
    gnulibc_version=''
  Dynamic Linking:
    dlsrc=dl_win32.xs, dlext=dll, d_dlsymun=undef, ccdlflags=' '
    cccdlflags=' ', lddlflags='-mdll -s -L"C:\strawberry163\perl\lib\CORE" -L"C:\strawberry163\c\lib"'


Characteristics of this binary (from libperl): 
  Compile-time options: HAS_TIMES HAVE_INTERP_INTERN MULTIPLICITY
                        PERLIO_LAYERS PERL_DONT_CREATE_GVSV
                        PERL_IMPLICIT_CONTEXT PERL_IMPLICIT_SYS
                        PERL_MALLOC_WRAP PERL_PRESERVE_IVUV PL_OP_SLAB_ALLOC
                        USE_ITHREADS USE_LARGE_FILES USE_LOCALE
                        USE_LOCALE_COLLATE USE_LOCALE_CTYPE
                        USE_LOCALE_NUMERIC USE_PERLIO USE_PERL_ATOF
  Built under MSWin32
  Compiled at Mar 12 2013 14:01:07
  %ENV:
    PERL5LIB="C:\strawberry163\cpan\build\BioPerl-Run-1.007002-2GbW7U/blib/arch;C:\strawberry163\cpan\build\BioPerl-Run-1.007002-2GbW7U/blib/lib;C:\strawberry163\cpan\build\BioPerl-1.007002-b7IsYA/blib/arch;C:\strawberry163\cpan\build\BioPerl-1.007002-b7IsYA/blib/lib"
    PERL5_CPANPLUS_IS_RUNNING="876"
    PERL5_CPAN_IS_RUNNING="876"
    PERL5_CPAN_IS_RUNNING_IN_RECURSION="1696,876"
    PERL_CR_SMOKER_CURRENT="Bio-Tools-Run-Alignment-TCoffee-1.7.2"
    PERL_CR_SMOKER_RUNONCE="1"
    PERL_EXTUTILS_AUTOINSTALL="--defaultdeps"
    PERL_MM_USE_DEFAULT="1"
  @INC:
    C:\strawberry163\cpan\build\BioPerl-Run-1.007002-2GbW7U/blib/arch
    C:\strawberry163\cpan\build\BioPerl-Run-1.007002-2GbW7U/blib/lib
    C:\strawberry163\cpan\build\BioPerl-1.007002-b7IsYA/blib/arch
    C:\strawberry163\cpan\build\BioPerl-1.007002-b7IsYA/blib/lib
    C:/strawberry163/perl/site/lib
    C:/strawberry163/perl/vendor/lib
    C:/strawberry163/perl/lib
    .