Bio-MUST-Apps-TwoScalp v0.180160 Perl 5 v5.24.1 x86_64-gnukfreebsd-thread-multi

Status

Pass

From

Chris Williams (BINGOS)

Dist

Bio-MUST-Apps-TwoScalp v0.180160

Platform

Perl 5 v5.24.1 x86_64-gnukfreebsd-thread-multi

Date

2018-01-19 02:21:00

ID

641b2a10-fcbf-11e7-a1cf-bb670eaac09d

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 DBAURAIN,

This is a computer-generated error report created automatically by
CPANPLUS, version 0.9172. Testers personal comments may appear
at the end of this report.


Thank you for uploading your work to CPAN.  Congratulations!
All tests were successful.

TEST RESULTS:

Below is the error stack from stage 'make test':

PERL_DL_NONLAZY=1 "/home/cpan/pit/thr/perl-5.24.1/bin/perl" "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(0, 'blib/lib', 'blib/arch')" t/*.t
t/author-critic.t ....... skipped: these tests are for testing by the author
t/author-pod-syntax.t ... skipped: these tests are for testing by the author
t/author-portability.t .. skipped: these tests are for testing by the author
t/two_scalp.t ........... skipped: skipped all two-scalp.pl tests!
Files=4, Tests=0,  2 wallclock secs ( 0.05 usr  0.07 sys +  1.07 cusr  1.33 csys =  2.52 CPU)
Result: NOTESTS


PREREQUISITES:

Here is a list of prerequisites you specified and versions we
managed to load:

	  Module Name                        Have     Want
	  Bio::MUST::Core                0.180140        0
	  Bio::MUST::Core::Ali           0.180140        0
	  Bio::MUST::Core::Constants     0.180140        0
	  Bio::MUST::Core::Seq           0.180140        0
	  Bio::MUST::Core::SeqId         0.180140        0
	  Bio::MUST::Core::SeqMask       0.180140        0
	  Bio::MUST::Core::Utils         0.180140        0
	  Bio::MUST::Drivers::Blast::Database::Temporary 0.173510        0
	  Bio::MUST::Drivers::Blast::Query 0.173510        0
	  ExtUtils::MakeMaker                7.30        0
	  Getopt::Euclid                    0.4.5        0
	  List::AllUtils                     0.14        0
	  Modern::Perl                   1.20170117        0
	  Moose                            2.2009        0
	  Path::Class                        0.37        0
	  Smart::Comments                    1.06        0
	  Test::Files                        0.14        0
	  Test::Most                         0.35        0
	  aliased                            0.34        0
	  autodie                            2.29        0
	  experimental                      0.016        0
	  feature                            1.42        0
	  namespace::autoclean               0.28        0
	  strict                             1.11        0
	  warnings                           1.36        0

Perl module toolchain versions installed:
	Module Name                        Have
	CPANPLUS                         0.9172
	CPANPLUS::Dist::Build              0.88
	Cwd                             3.63_01
	ExtUtils::CBuilder             0.280230
	ExtUtils::Command                  7.30
	ExtUtils::Install                  2.14
	ExtUtils::MakeMaker                7.30
	ExtUtils::Manifest                 1.70
	ExtUtils::ParseXS                  3.35
	File::Spec                      3.63_01
	Module::Build                    0.4224
	Pod::Parser                        1.63
	Pod::Simple                        3.32
	Test2                          1.302120
	Test::Harness                      3.39
	Test::More                     1.302120
	version                          0.9918

******************************** NOTE ********************************
The comments above are created mechanically, possibly without manual
checking by the sender.  As there are many people performing automatic
tests on each upload to CPAN, it is likely that you will receive
identical messages about the same problem.

If you believe that the message is mistaken, please reply to the first
one with correction and/or additional informations, and do not take
it personally.  We appreciate your patience. :)
**********************************************************************

Additional comments:


This report was machine-generated by CPANPLUS::Dist::YACSmoke 1.02.
Powered by minismokebox version 0.68

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

Environment variables:

    AUTOMATED_TESTING = 1
    LANG = en_GB.UTF-8
    LANGUAGE = en_GB:en
    NONINTERACTIVE_TESTING = 1
    PATH = /home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/YmgH6eS5S1/Bio-MUST-Apps-TwoScalp-0.180160/blib/script:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/itmmx4P0oH/Bio-MUST-Core-0.180140/blib/script:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/3XJ14hQ6at/Test-YAML-1.06/blib/script:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/_ypDkA_grP/Cpanel-JSON-XS-3.0239/blib/script:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/ke7D6OGjsm/Moose-2.2009/blib/script:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/5OTqcD9Fyx/Package-Stash-0.37/blib/script:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/1HSciNh8wO/libwww-perl-6.31/blib/script:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/Qtru7v1z1P/File-Find-Rule-0.34/blib/script:/usr/local/bin:/usr/bin:/bin:/usr/local/games:/usr/games
    PERL5LIB = 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-Without-Module-0.20/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/tBejr50S3A/Algorithm-Diff-1.1903/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/tBejr50S3A/Algorithm-Diff-1.1903/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/KxfohIt8l7/Spiffy-0.46/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/KxfohIt8l7/Spiffy-0.46/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/yNXCfOR0F0/Text-Diff-1.45/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/yNXCfOR0F0/Text-Diff-1.45/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/UnV9t1DRlr/Test-Base-0.88/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/UnV9t1DRlr/Test-Base-0.88/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/3XJ14hQ6at/Test-YAML-1.06/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/3XJ14hQ6at/Test-YAML-1.06/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/IZkgDnYICA/YAML-1.24/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/IZkgDnYICA/YAML-1.24/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/p8dzyMeq1B/namespace-autoclean-0.28/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/p8dzyMeq1B/namespace-autoclean-0.28/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/iNx98DYUTK/MooseX-Storage-0.52/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/iNx98DYUTK/MooseX-Storage-0.52/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/L6GtSb4tcA/Path-Class-0.37/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/L6GtSb4tcA/Path-Class-0.37/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/3ZdSMe_GO6/Smart-Comments-1.06/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/3ZdSMe_GO6/Smart-Comments-1.06/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/FHc2IhHpBG/Statistics-Descriptive-3.0612/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/FHc2IhHpBG/Statistics-Descriptive-3.0612/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/offKY6a7r1/Test-Files-0.14/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/offKY6a7r1/Test-Files-0.14/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/HP8BHQaQ2X/Class-Data-Inheritable-0.08/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/HP8BHQaQ2X/Class-Data-Inheritable-0.08/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/XeQpG_7uf4/Exception-Class-1.44/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/XeQpG_7uf4/Exception-Class-1.44/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/5td7850AaW/Capture-Tiny-0.46/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/5td7850AaW/Capture-Tiny-0.46/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/wdES2ZaWhx/Test-Differences-0.64/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/wdES2ZaWhx/Test-Differences-0.64/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/Z4EHOkJVbA/Test-Warn-0.32/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/Z4EHOkJVbA/Test-Warn-0.32/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/btUR62JznD/Test-Most-0.35/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/btUR62JznD/Test-Most-0.35/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/Ph2qAWex9g/Tie-IxHash-1.23/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/Ph2qAWex9g/Tie-IxHash-1.23/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/2DRjROGCaD/XML-Bare-0.53/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/2DRjROGCaD/XML-Bare-0.53/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/4tE4kgawFW/YAML-LibYAML-0.69/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/4tE4kgawFW/YAML-LibYAML-0.69/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/nt0kFnmwXB/aliased-0.34/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/nt0kFnmwXB/aliased-0.34/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/itmmx4P0oH/Bio-MUST-Core-0.180140/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/itmmx4P0oH/Bio-MUST-Core-0.180140/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/5rNPUFpMpV/Bio-FastParsers-0.173640/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/5rNPUFpMpV/Bio-FastParsers-0.173640/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/sf6372cRL4/Bio-MUST-Drivers-0.173510/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/sf6372cRL4/Bio-MUST-Drivers-0.173510/blib/arch:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/YmgH6eS5S1/Bio-MUST-Apps-TwoScalp-0.180160/blib/lib:/home/cpan/pit/thr/conf/perl-5.24.1/.cpanplus/5.24.1/build/YmgH6eS5S1/Bio-MUST-Apps-TwoScalp-0.180160/blib/arch
    PERL5_CPANPLUS_IS_RUNNING = 17921
    PERL5_CPANPLUS_IS_VERSION = 0.9172
    PERL5_MINISMOKEBOX = 0.68
    PERL5_YACSMOKE_BASE = /home/cpan/pit/thr/conf/perl-5.24.1
    PERL_EXTUTILS_AUTOINSTALL = --defaultdeps
    PERL_MM_USE_DEFAULT = 1
    SHELL = /bin/bash
    TERM = screen

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

    Perl: $^X = /home/cpan/pit/thr/perl-5.24.1/bin/perl
    UID:  $<  = 1001
    EUID: $>  = 1001
    GID:  $(  = 1001 1001
    EGID: $)  = 1001 1001


-------------------------------


--

Summary of my perl5 (revision 5 version 24 subversion 1) configuration:
   
  Platform:
    osname=gnukfreebsd, osvers=10.1-0-amd64, archname=x86_64-gnukfreebsd-thread-multi
    uname='gnukfreebsd kondor 10.1-0-amd64 #0 wed, 16 mar 2016 23:16:33 +0000 x86_64 amd64 qemu virtual cpu version 2.0.0 gnukfreebsd '
    config_args='-des -Dprefix=/home/cpan/pit/thr/perl-5.24.1 -Dusethreads'
    hint=recommended, useposix=true, d_sigaction=define
    useithreads=define, usemultiplicity=define
    use64bitint=define, use64bitall=define, uselongdouble=undef
    usemymalloc=n, bincompat5005=undef
  Compiler:
    cc='cc', ccflags ='-D_REENTRANT -D_GNU_SOURCE -fwrapv -fno-strict-aliasing -pipe -fstack-protector-strong -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_FORTIFY_SOURCE=2',
    optimize='-O2',
    cppflags='-D_REENTRANT -D_GNU_SOURCE -fwrapv -fno-strict-aliasing -pipe -fstack-protector-strong -I/usr/local/include'
    ccversion='', gccversion='4.9.2', gccosandvers=''
    intsize=4, longsize=8, ptrsize=8, doublesize=8, byteorder=12345678, doublekind=3
    d_longlong=define, longlongsize=8, d_longdbl=define, longdblsize=16, longdblkind=3
    ivtype='long', ivsize=8, nvtype='double', nvsize=8, Off_t='off_t', lseeksize=8
    alignbytes=8, prototype=define
  Linker and Libraries:
    ld='cc', ldflags =' -fstack-protector-strong -L/usr/local/lib'
    libpth=/usr/local/lib /usr/lib/gcc/x86_64-kfreebsd-gnu/4.9/include-fixed /usr/include/x86_64-kfreebsd-gnu /usr/lib /lib/x86_64-kfreebsd-gnu /lib/../lib /usr/lib/x86_64-kfreebsd-gnu /usr/lib/../lib /lib
    libs=-lpthread -lnsl -lgdbm -ldl -lm -lcrypt -lutil -lc -lgdbm_compat
    perllibs=-lpthread -lnsl -ldl -lm -lcrypt -lutil -lc
    libc=/usr/lib/x86_64-kfreebsd-gnu/libc.so, so=so, useshrplib=false, libperl=libperl.a
    gnulibc_version='2.19'
  Dynamic Linking:
    dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags='-Wl,-E'
    cccdlflags='-fpic', lddlflags='-shared -O2 -L/usr/local/lib -fstack-protector-strong'


Characteristics of this binary (from libperl): 
  Compile-time options: HAS_TIMES MULTIPLICITY PERLIO_LAYERS
                        PERL_COPY_ON_WRITE PERL_DONT_CREATE_GVSV
                        PERL_HASH_FUNC_ONE_AT_A_TIME_HARD
                        PERL_IMPLICIT_CONTEXT PERL_MALLOC_WRAP
                        PERL_PRESERVE_IVUV USE_64_BIT_ALL USE_64_BIT_INT
                        USE_ITHREADS USE_LARGE_FILES USE_LOCALE
                        USE_LOCALE_COLLATE USE_LOCALE_CTYPE
                        USE_LOCALE_NUMERIC USE_LOCALE_TIME USE_PERLIO
                        USE_PERL_ATOF USE_REENTRANT_API
  Locally applied patches:
	Devel::PatchPerl 1.46
  Built under gnukfreebsd
  Compiled at Jan 16 2017 21:19:51
  %ENV:
    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