cpantestlogs/Bio::Community::Tools::RepresentativeIdConverter_incfailure.log
2017-05-02 18:44:36 -07:00

299 lines
17 KiB
Text

perl-blead
==========
cpanm (App::cpanminus) 1.7043 on perl 5.026000 built for x86_64-linux
Work directory is /home/ryan/.cpanm/work/1493203741.28143
You have make /usr/bin/make
You have LWP 6.26
You have /bin/tar: tar (GNU tar) 1.29
Copyright (C) 2015 Free Software Foundation, Inc.
License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html>.
This is free software: you are free to change and redistribute it.
There is NO WARRANTY, to the extent permitted by law.
Written by John Gilmore and Jay Fenlason.
You have /usr/bin/unzip
Searching Bio::Community::Tools::RepresentativeIdConverter () on cpanmetadb ...
Unpacking Bio-Community-0.001004.tar.gz
--> Working on Bio::Community::Tools::RepresentativeIdConverter
Fetching http://www.cpan.org/authors/id/F/FA/FANGLY/Bio-Community-0.001004.tar.gz ... OK
Bio-Community-0.001004
Bio-Community-0.001004/LICENSE
Bio-Community-0.001004/README
Bio-Community-0.001004/MANIFEST
Bio-Community-0.001004/Changes
Bio-Community-0.001004/META.yml
Bio-Community-0.001004/META.json
Bio-Community-0.001004/Build.PL
Bio-Community-0.001004/xt
Bio-Community-0.001004/xt/pod-coverage.t
Bio-Community-0.001004/scripts
Bio-Community-0.001004/scripts/bc_convert_files
Bio-Community-0.001004/scripts/bc_relative_to_absolute
Bio-Community-0.001004/scripts/bc_use_repr_id
Bio-Community-0.001004/scripts/bc_get_info
Bio-Community-0.001004/scripts/bc_summarize
Bio-Community-0.001004/scripts/bc_manage_samples
Bio-Community-0.001004/scripts/bc_measure_alpha
Bio-Community-0.001004/scripts/bc_clean_shrapnel
Bio-Community-0.001004/scripts/bc_measure_beta
Bio-Community-0.001004/scripts/bc_remove_unexpected_members
Bio-Community-0.001004/scripts/bc_rarefy
Bio-Community-0.001004/scripts/bc_correct_misassignments
Bio-Community-0.001004/lib
Bio-Community-0.001004/lib/Bio
Bio-Community-0.001004/lib/Bio/Community.pm
Bio-Community-0.001004/lib/Bio/Community
Bio-Community-0.001004/lib/Bio/Community/IO.pm
Bio-Community-0.001004/lib/Bio/Community/TaxonomyUtils.pm
Bio-Community-0.001004/lib/Bio/Community/Alpha.pm
Bio-Community-0.001004/lib/Bio/Community/Member.pm
Bio-Community-0.001004/lib/Bio/Community/Meta.pm
Bio-Community-0.001004/lib/Bio/Community/Types.pm
Bio-Community-0.001004/lib/Bio/Community/Tools
Bio-Community-0.001004/lib/Bio/Community/Tools/Sampler.pm
Bio-Community-0.001004/lib/Bio/Community/Tools/Summarizer.pm
Bio-Community-0.001004/lib/Bio/Community/Tools/ShrapnelCleaner.pm
Bio-Community-0.001004/lib/Bio/Community/Tools/Rarefier.pm
Bio-Community-0.001004/lib/Bio/Community/Tools/Transformer.pm
Bio-Community-0.001004/lib/Bio/Community/Tools/RepresentativeIdConverter.pm
Bio-Community-0.001004/lib/Bio/Community/IO
Bio-Community-0.001004/lib/Bio/Community/IO/FormatGuesser.pm
Bio-Community-0.001004/lib/Bio/Community/IO/Driver
Bio-Community-0.001004/lib/Bio/Community/IO/Driver/gaas.pm
Bio-Community-0.001004/lib/Bio/Community/IO/Driver/qiime.pm
Bio-Community-0.001004/lib/Bio/Community/IO/Driver/generic.pm
Bio-Community-0.001004/lib/Bio/Community/IO/Driver/dummy.pm
Bio-Community-0.001004/lib/Bio/Community/IO/Driver/unifrac.pm
Bio-Community-0.001004/lib/Bio/Community/IO/Driver/biom.pm
Bio-Community-0.001004/lib/Bio/Community/Meta
Bio-Community-0.001004/lib/Bio/Community/Meta/Gamma.pm
Bio-Community-0.001004/lib/Bio/Community/Meta/Beta.pm
Bio-Community-0.001004/lib/Bio/Community/Role
Bio-Community-0.001004/lib/Bio/Community/Role/IO.pm
Bio-Community-0.001004/lib/Bio/Community/Role/PRNG.pm
Bio-Community-0.001004/lib/Bio/Community/Role/Classified.pm
Bio-Community-0.001004/lib/Bio/Community/Role/Weighted.pm
Bio-Community-0.001004/lib/Bio/Community/Role/Table.pm
Bio-Community-0.001004/lib/Bio/Community/Role/Locked.pm
Bio-Community-0.001004/lib/Bio/Community/Role/Described.pm
Bio-Community-0.001004/lib/Bio/Community/Role/Sequenced.pm
Bio-Community-0.001004/t
Bio-Community-0.001004/t/IO.t
Bio-Community-0.001004/t/Alpha.t
Bio-Community-0.001004/t/Community.t
Bio-Community-0.001004/t/Meta.t
Bio-Community-0.001004/t/Member.t
Bio-Community-0.001004/t/Tools
Bio-Community-0.001004/t/Tools/RepresentativeIdConverter.t
Bio-Community-0.001004/t/Tools/Sampler.t
Bio-Community-0.001004/t/Tools/ShrapnelCleaner.t
Bio-Community-0.001004/t/Tools/Transformer.t
Bio-Community-0.001004/t/Tools/Summarizer.t
Bio-Community-0.001004/t/Tools/Rarefier.t
Bio-Community-0.001004/t/IO
Bio-Community-0.001004/t/IO/weights.t
Bio-Community-0.001004/t/IO/FormatGuesser.t
Bio-Community-0.001004/t/IO/Driver
Bio-Community-0.001004/t/IO/Driver/generic.t
Bio-Community-0.001004/t/IO/Driver/gaas.t
Bio-Community-0.001004/t/IO/Driver/biom.t
Bio-Community-0.001004/t/IO/Driver/unifrac.t
Bio-Community-0.001004/t/IO/Driver/qiime.t
Bio-Community-0.001004/t/Meta
Bio-Community-0.001004/t/Meta/Beta.t
Bio-Community-0.001004/t/Meta/Gamma.t
Bio-Community-0.001004/t/data
Bio-Community-0.001004/t/data/gg_99_otu_map.txt
Bio-Community-0.001004/t/data/qiime_w_silva_taxo_L2.txt
Bio-Community-0.001004/t/data/weights_otuid.txt
Bio-Community-0.001004/t/data/lorem_ipsum.txt
Bio-Community-0.001004/t/data/gaas_other.txt
Bio-Community-0.001004/t/data/weights_2.txt
Bio-Community-0.001004/t/data/weights_taxstring.txt
Bio-Community-0.001004/t/data/biom_invalid.txt
Bio-Community-0.001004/t/data/qiime_w_greengenes_taxo.txt
Bio-Community-0.001004/t/data/gaas_compo.txt
Bio-Community-0.001004/t/data/biom_rich_sparse.txt
Bio-Community-0.001004/t/data/unifrac_quantitative.txt
Bio-Community-0.001004/t/data/gaas_seq_compo.txt
Bio-Community-0.001004/t/data/qiime_w_silva_taxo_and_dups.txt
Bio-Community-0.001004/t/data/qiime_w_root.txt
Bio-Community-0.001004/t/data/unifrac_quantitative_tricky.txt
Bio-Community-0.001004/t/data/qiime_alt_header.txt
Bio-Community-0.001004/t/data/biom_no_spp.txt
Bio-Community-0.001004/t/data/weights_1.txt
Bio-Community-0.001004/t/data/biom_float.txt
Bio-Community-0.001004/t/data/table.txt
Bio-Community-0.001004/t/data/table_mac.txt
Bio-Community-0.001004/t/data/qiime_w_no_taxo.txt
Bio-Community-0.001004/t/data/generic_table_win.txt
Bio-Community-0.001004/t/data/generic_table.txt
Bio-Community-0.001004/t/data/generic_table_mac.txt
Bio-Community-0.001004/t/data/table_win.txt
Bio-Community-0.001004/t/data/biom_dups.txt
Bio-Community-0.001004/t/data/qiime_w_two_communities.txt
Bio-Community-0.001004/t/data/to_merge_1.qiime
Bio-Community-0.001004/t/data/biom_minimal_dense.txt
Bio-Community-0.001004/t/data/to_merge_2.qiime
Bio-Community-0.001004/t/data/table_2.txt
Bio-Community-0.001004/t/data/qiime_w_missing.txt
Bio-Community-0.001004/t/data/unifrac_qualitative.txt
Bio-Community-0.001004/t/data/rep_set_tax_assignments.txt
Bio-Community-0.001004/t/data/qiime_single_community.txt
Bio-Community-0.001004/t/data/table_extra_line.txt
Bio-Community-0.001004/t/data/taxonomy
Bio-Community-0.001004/t/data/taxonomy/ncbi_small_nodes.dmp
Bio-Community-0.001004/t/data/taxonomy/silva_SSURef_108_tax_silva_trunc.fasta
Bio-Community-0.001004/t/data/taxonomy/ncbi_small_names.dmp
Bio-Community-0.001004/t/data/taxonomy/greengenes_taxonomy_16S_candiv_gg_2011_1.txt
Bio-Community-0.001004/t/Role
Bio-Community-0.001004/t/Role/Locked.t
Bio-Community-0.001004/t/Role/TestPRNG.pm
Bio-Community-0.001004/t/Role/TestTable.pm
Bio-Community-0.001004/t/Role/PRNG.t
Bio-Community-0.001004/t/Role/Table.t
Bio-Community-0.001004/t/Role/TestLocked.pm
Entering Bio-Community-0.001004
Checking configure dependencies from META.json
Checking if you have Module::Build 0.42 ... Yes (0.4222)
Checking if you have ExtUtils::Install 1.46 ... Yes (2.04)
Running Build.PL
Configuring Bio-Community-0.001004 ... Checking prerequisites...
recommends:
* Math::GSL::SF is not installed
ERRORS/WARNINGS FOUND IN PREREQUISITES. You may wish to install the versions
of the modules indicated above before proceeding with this installation
Created MYMETA.yml and MYMETA.json
Creating new 'Build' script for 'Bio-Community' version '0.001004'
Checking dependencies from MYMETA.json ...
Checking if you have Scalar::Util 0 ... Yes (1.47)
Checking if you have Method::Signatures 0 ... Yes (20170211)
Checking if you have MooseX::StrictConstructor 0 ... Yes (0.21)
Checking if you have MooseX::NonMoose 0 ... Yes (0.26)
Checking if you have Moose 0 ... Yes (2.2004)
Checking if you have Test::Number::Delta 0 ... Yes (1.06)
Checking if you have Bio::Root::Version 1.006922 ... Yes (1.007001)
Checking if you have Math::Random::MT 0 ... Yes (1.17)
Checking if you have Getopt::Euclid v0.4.3 ... Yes (0.4.5)
Checking if you have Tie::IxHash 0 ... Yes (1.23)
Checking if you have Module::Runtime 0 ... Yes (0.014)
Checking if you have Parallel::Iterator 0 ... Yes (1.00)
Checking if you have PerlIO::eol 0 ... Yes (0.16)
Checking if you have JSON::XS 0 ... Yes (3.01)
Checking if you have Hash::Util 0 ... Yes (0.22)
Checking if you have DateTime 0 ... Yes (1.42)
OK
Building and testing Bio-Community-0.001004 ... Building Bio-Community
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/Alpha.t ............................ ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/Community.t ........................ ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/IO.t ............................... ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/IO/Driver/biom.t ................... ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/IO/Driver/gaas.t ................... ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/IO/Driver/generic.t ................ ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/IO/Driver/qiime.t .................. ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/IO/Driver/unifrac.t ................ ok
t/IO/FormatGuesser.t ................. ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/IO/weights.t ....................... ok
t/Member.t ........................... ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/Meta.t ............................. ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/Meta/Beta.t ........................ ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/Meta/Gamma.t ....................... ok
# Failed test 'use t::Role::TestLocked;'
# at t/Role/Locked.t line 5.
# Tried to use 't::Role::TestLocked'.
# Error: Can't locate t/Role/TestLocked.pm in @INC (you may need to install the t::Role::TestLocked module) (@INC contains: /home/ryan/.cpanm/work/1493203741.28143/Bio-Community-0.001004/blib/lib /home/ryan/.cpanm/work/1493203741.28143/Bio-Community-0.001004/blib/arch /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/x86_64-linux /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0 /home/ryan/perl5/perlbrew/perls/perl-blead/lib/5.26.0/x86_64-linux /home/ryan/perl5/perlbrew/perls/perl-blead/lib/5.26.0) at t/Role/Locked.t line 5.
# BEGIN failed--compilation aborted at t/Role/Locked.t line 5.
Can't locate object method "new" via package "t::Role::TestLocked" (perhaps you forgot to load "t::Role::TestLocked"?) at t/Role/Locked.t line 15.
# Tests were run but no plan was declared and done_testing() was not seen.
# Looks like your test exited with 255 just after 1.
t/Role/Locked.t ......................
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 1/1 subtests
# Failed test 'use t::Role::TestPRNG;'
# at t/Role/PRNG.t line 5.
# Tried to use 't::Role::TestPRNG'.
# Error: Can't locate t/Role/TestPRNG.pm in @INC (you may need to install the t::Role::TestPRNG module) (@INC contains: /home/ryan/.cpanm/work/1493203741.28143/Bio-Community-0.001004/blib/lib /home/ryan/.cpanm/work/1493203741.28143/Bio-Community-0.001004/blib/arch /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/x86_64-linux /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0 /home/ryan/perl5/perlbrew/perls/perl-blead/lib/5.26.0/x86_64-linux /home/ryan/perl5/perlbrew/perls/perl-blead/lib/5.26.0) at t/Role/PRNG.t line 5.
# BEGIN failed--compilation aborted at t/Role/PRNG.t line 5.
Can't locate object method "new" via package "t::Role::PRNG" (perhaps you forgot to load "t::Role::PRNG"?) at t/Role/PRNG.t line 15.
# Tests were run but no plan was declared and done_testing() was not seen.
# Looks like your test exited with 255 just after 1.
t/Role/PRNG.t ........................
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 1/1 subtests
# Failed test 'use t::Role::TestTable;'
# at t/Role/Table.t line 5.
# Tried to use 't::Role::TestTable'.
# Error: Can't locate t/Role/TestTable.pm in @INC (you may need to install the t::Role::TestTable module) (@INC contains: /home/ryan/.cpanm/work/1493203741.28143/Bio-Community-0.001004/blib/lib /home/ryan/.cpanm/work/1493203741.28143/Bio-Community-0.001004/blib/arch /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/x86_64-linux /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0 /home/ryan/perl5/perlbrew/perls/perl-blead/lib/5.26.0/x86_64-linux /home/ryan/perl5/perlbrew/perls/perl-blead/lib/5.26.0) at t/Role/Table.t line 5.
# BEGIN failed--compilation aborted at t/Role/Table.t line 5.
Can't locate object method "new" via package "t::Role::TestTable" (perhaps you forgot to load "t::Role::TestTable"?) at t/Role/Table.t line 17.
# Tests were run but no plan was declared and done_testing() was not seen.
# Looks like your test exited with 25 just after 1.
t/Role/Table.t .......................
Dubious, test returned 25 (wstat 6400, 0x1900)
Failed 1/1 subtests
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/Tools/Rarefier.t ................... ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/Tools/RepresentativeIdConverter.t .. ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/Tools/Sampler.t .................... ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/Tools/ShrapnelCleaner.t ............ ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/Tools/Summarizer.t ................. ok
Any::Moose is deprecated. Please use Moo instead at /home/ryan/perl5/perlbrew/perls/perl-blead/lib/site_perl/5.26.0/Method/Signatures.pm line 1293.
t/Tools/Transformer.t ................ ok
Test Summary Report
-------------------
t/Role/Locked.t (Wstat: 65280 Tests: 1 Failed: 1)
Failed test: 1
Non-zero exit status: 255
Parse errors: No plan found in TAP output
t/Role/PRNG.t (Wstat: 65280 Tests: 1 Failed: 1)
Failed test: 1
Non-zero exit status: 255
Parse errors: No plan found in TAP output
t/Role/Table.t (Wstat: 6400 Tests: 1 Failed: 1)
Failed test: 1
Non-zero exit status: 25
Parse errors: No plan found in TAP output
Files=23, Tests=7588, 22 wallclock secs ( 0.41 usr 0.02 sys + 7.72 cusr 0.38 csys = 8.53 CPU)
Result: FAIL
Failed 3/23 test programs. 3/7588 subtests failed.
! Installing Bio::Community::Tools::RepresentativeIdConverter failed. See /home/ryan/.cpanm/work/1493203741.28143/build.log for details. Retry with --force to force install it.
FAIL
Command [cpanm --reinstall --verbose Bio::Community::Tools::RepresentativeIdConverter] terminated with exit code 1 ($? = 256) under the following perl environment:
Command terminated with non-zero status.
Current perl:
Name: perl-blead
Path: /home/ryan/perl5/perlbrew/perls/perl-blead/bin/perl
Config: -de -Dprefix=/home/ryan/perl5/perlbrew/perls/perl-blead -Dusedevel -Aeval:scriptdir=/home/ryan/perl5/perlbrew/perls/perl-blead/bin
Compiled at: Mar 30 2017 03:10:09
perlbrew:
version: 0.78
ENV:
PERLBREW_ROOT: /home/ryan/perl5/perlbrew
PERLBREW_HOME: /home/ryan/.perlbrew
PERLBREW_PATH: /home/ryan/perl5/perlbrew/bin:/home/ryan/perl5/perlbrew/perls/perl-blead/bin
PERLBREW_MANPATH: /home/ryan/perl5/perlbrew/perls/perl-blead/man