Bio-MUST-Apps-TwoScalp v0.180160 Perl 5 v5.26.0 x86_64-gnukfreebsd-thread-multi

Status

Pass

From

Chris Williams (BINGOS)

Dist

Bio-MUST-Apps-TwoScalp v0.180160

Platform

Perl 5 v5.26.0 x86_64-gnukfreebsd-thread-multi

Date

2018-01-18 19:24:42

ID

3c406314-fc85-11e7-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-5.26.0/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,  3 wallclock secs ( 0.03 usr  0.08 sys +  1.12 cusr  1.33 csys =  2.57 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                            1.47        0
	  namespace::autoclean               0.28        0
	  strict                             1.11        0
	  warnings                           1.37        0

Perl module toolchain versions installed:
	Module Name                        Have
	CPANPLUS                         0.9172
	CPANPLUS::Dist::Build              0.88
	Cwd                                3.67
	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                         3.67
	Module::Build                    0.4224
	Pod::Parser                        1.63
	Pod::Simple                        3.35
	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-5.26.0/.cpanplus/5.26.0/build/nKFIkvVvLs/Bio-MUST-Apps-TwoScalp-0.180160/blib/script:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/ntYgsVBwk9/Bio-MUST-Core-0.180140/blib/script:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/n2hFTPGYna/Test-YAML-1.06/blib/script:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/kcKNDixOWs/Cpanel-JSON-XS-3.0239/blib/script:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/Y4dC2q3ViI/Moose-2.2009/blib/script:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/2d5h2qaFRB/Package-Stash-0.37/blib/script:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/B7Bkvh2KDJ/libwww-perl-6.31/blib/script:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/RE470BoyNP/File-Find-Rule-0.34/blib/script:/usr/local/bin:/usr/bin:/bin:/usr/local/games:/usr/games
    PERL5LIB = 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orithm-Diff-1.1903/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/Fe2gVvM7pH/Spiffy-0.46/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/Fe2gVvM7pH/Spiffy-0.46/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/iVKoiFZRZ6/Text-Diff-1.45/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/iVKoiFZRZ6/Text-Diff-1.45/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/4Gj4cjBU_n/Test-Base-0.88/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/4Gj4cjBU_n/Test-Base-0.88/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/n2hFTPGYna/Test-YAML-1.06/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/n2hFTPGYna/Test-YAML-1.06/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/AnGU4n9aBy/YAML-1.24/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/AnGU4n9aBy/YAML-1.24/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/HwkM8_kXuM/namespace-autoclean-0.28/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/HwkM8_kXuM/namespace-autoclean-0.28/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/5yPkBoU1yG/MooseX-Storage-0.52/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/5yPkBoU1yG/MooseX-Storage-0.52/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/OdItIGT7CH/Path-Class-0.37/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/OdItIGT7CH/Path-Class-0.37/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/Jli19Zrx6B/Smart-Comments-1.06/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/Jli19Zrx6B/Smart-Comments-1.06/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/FrHi1cGEdz/Statistics-Descriptive-3.0612/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/FrHi1cGEdz/Statistics-Descriptive-3.0612/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/7wuZ5asd0L/Test-Files-0.14/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/7wuZ5asd0L/Test-Files-0.14/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/ybm2tDjRBf/Class-Data-Inheritable-0.08/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/ybm2tDjRBf/Class-Data-Inheritable-0.08/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/9udFvpQgZc/Exception-Class-1.44/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/9udFvpQgZc/Exception-Class-1.44/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/meOlP_tua7/Capture-Tiny-0.46/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/meOlP_tua7/Capture-Tiny-0.46/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/fP5KpTlDjW/Test-Differences-0.64/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/fP5KpTlDjW/Test-Differences-0.64/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/zOuiqoXPsT/Test-Warn-0.32/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/zOuiqoXPsT/Test-Warn-0.32/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/QZO6je2992/Test-Most-0.35/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/QZO6je2992/Test-Most-0.35/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/eU_gWuqeUv/Tie-IxHash-1.23/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/eU_gWuqeUv/Tie-IxHash-1.23/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/J8hnbtZ2LM/XML-Bare-0.53/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/J8hnbtZ2LM/XML-Bare-0.53/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/IELx2PgY4s/YAML-LibYAML-0.69/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/IELx2PgY4s/YAML-LibYAML-0.69/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/wtx2gilzCE/aliased-0.34/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/wtx2gilzCE/aliased-0.34/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/ntYgsVBwk9/Bio-MUST-Core-0.180140/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/ntYgsVBwk9/Bio-MUST-Core-0.180140/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/1al7cVRHTt/Bio-FastParsers-0.173640/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/1al7cVRHTt/Bio-FastParsers-0.173640/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/toJznB72AA/Bio-MUST-Drivers-0.173510/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/toJznB72AA/Bio-MUST-Drivers-0.173510/blib/arch:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/nKFIkvVvLs/Bio-MUST-Apps-TwoScalp-0.180160/blib/lib:/home/cpan/pit/thr/conf/perl-5.26.0/.cpanplus/5.26.0/build/nKFIkvVvLs/Bio-MUST-Apps-TwoScalp-0.180160/blib/arch
    PERL5_CPANPLUS_IS_RUNNING = 27515
    PERL5_CPANPLUS_IS_VERSION = 0.9172
    PERL5_MINISMOKEBOX = 0.68
    PERL5_YACSMOKE_BASE = /home/cpan/pit/thr/conf/perl-5.26.0
    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-5.26.0/bin/perl
    UID:  $<  = 1001
    EUID: $>  = 1001
    GID:  $(  = 1001 1001
    EGID: $)  = 1001 1001


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


--

Summary of my perl5 (revision 5 version 26 subversion 0) 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-5.26.0 -Dusethreads'
    hint=recommended
    useposix=true
    d_sigaction=define
    useithreads=define
    usemultiplicity=define
    use64bitint=define
    use64bitall=define
    uselongdouble=undef
    usemymalloc=n
    default_inc_excludes_dot=define
    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_IMPLICIT_CONTEXT
    PERL_MALLOC_WRAP
    PERL_OP_PARENT
    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 1.48
  Built under gnukfreebsd
  Compiled at May 31 2017 15:30:37
  %ENV:
    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    PERL5_CPANPLUS_IS_RUNNING="27515"
    PERL5_CPANPLUS_IS_VERSION="0.9172"
    PERL5_MINISMOKEBOX="0.68"
    PERL5_YACSMOKE_BASE="/home/cpan/pit/thr/conf/perl-5.26.0"
    PERL_EXTUTILS_AUTOINSTALL="--defaultdeps"
    PERL_MM_USE_DEFAULT="1"
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