237 lines
11 KiB
Text
237 lines
11 KiB
Text
perl-blead
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==========
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cpanm (App::cpanminus) 1.7042 on perl 5.026000 built for x86_64-linux
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Work directory is /home/ryan/.cpanm/work/1492123677.4820
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You have make /usr/bin/make
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You have LWP 6.24
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You have /bin/tar: tar (GNU tar) 1.29
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Copyright (C) 2015 Free Software Foundation, Inc.
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License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html>.
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This is free software: you are free to change and redistribute it.
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There is NO WARRANTY, to the extent permitted by law.
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Written by John Gilmore and Jay Fenlason.
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You have /usr/bin/unzip
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Searching Bio::Das::ProServer () on cpanmetadb ...
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Unpacking Bio-Das-ProServer-2.20.tar.gz
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--> Working on Bio::Das::ProServer
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Fetching http://www.cpan.org/authors/id/R/RP/RPETTETT/Bio-Das-ProServer-2.20.tar.gz ... OK
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Bio-Das-ProServer-2.20
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Bio-Das-ProServer-2.20/SIGNATURE
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Bio-Das-ProServer-2.20/MANIFEST
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Bio-Das-ProServer-2.20/Makefile.PL
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Bio-Das-ProServer-2.20/Build.PL
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Bio-Das-ProServer-2.20/Changes
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Bio-Das-ProServer-2.20/README
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Bio-Das-ProServer-2.20/META.yml
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Bio-Das-ProServer-2.20/coordinates
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Bio-Das-ProServer-2.20/coordinates/registry_coordinates.xml
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Bio-Das-ProServer-2.20/doc
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Bio-Das-ProServer-2.20/doc/pod2html
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Bio-Das-ProServer-2.20/doc/CHANGES_2.9.txt
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Bio-Das-ProServer-2.20/doc/proserver_guide.html
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Bio-Das-ProServer-2.20/doc/CHANGES_2.7.txt
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Bio-Das-ProServer-2.20/doc/proserver_tutorial_2
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Bio-Das-ProServer-2.20/doc/proserver_tutorial_2/mysource.ini
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Bio-Das-ProServer-2.20/doc/proserver_tutorial_2/myplugin.pm
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Bio-Das-ProServer-2.20/doc/proserver_tutorial_2/proserver_tutorial_2.html
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Bio-Das-ProServer-2.20/doc/proserver_tutorial_2/exons.txt
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Bio-Das-ProServer-2.20/doc/proserver_tutorial_3
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Bio-Das-ProServer-2.20/doc/proserver_tutorial_3/mysource.ini
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Bio-Das-ProServer-2.20/doc/proserver_tutorial_3/proserver_tutorial_3.html
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Bio-Das-ProServer-2.20/doc/proserver_tutorial_3/myplugin.pm
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Bio-Das-ProServer-2.20/doc/proserver_tutorial_1
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Bio-Das-ProServer-2.20/doc/proserver_tutorial_1/proserver_tutorial_1.html
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Bio-Das-ProServer-2.20/doc/proserver_tutorial_1/CHROMOSOME_MtDNA.gff
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Bio-Das-ProServer-2.20/t
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Bio-Das-ProServer-2.20/t/11-transport-generic.t
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Bio-Das-ProServer-2.20/t/11-transport-oracle.t
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Bio-Das-ProServer-2.20/t/11-transport-dbi.t
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Bio-Das-ProServer-2.20/t/11-transport-file.t
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Bio-Das-ProServer-2.20/t/11-transport-sif.t
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Bio-Das-ProServer-2.20/t/26-interaction.t
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Bio-Das-ProServer-2.20/t/21-features-parents.t
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Bio-Das-ProServer-2.20/t/distribution.t
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Bio-Das-ProServer-2.20/t/27-volmap.t
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Bio-Das-ProServer-2.20/t/33-auth-http.t
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Bio-Das-ProServer-2.20/t/05-config.t
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Bio-Das-ProServer-2.20/t/10-sourceadaptor.t
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Bio-Das-ProServer-2.20/t/21-features-versions.t
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Bio-Das-ProServer-2.20/t/critic.t
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Bio-Das-ProServer-2.20/t/32-auth-ip.t
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Bio-Das-ProServer-2.20/t/25-alignment.t
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Bio-Das-ProServer-2.20/t/16-targets.t
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Bio-Das-ProServer-2.20/t/00-pod.t
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Bio-Das-ProServer-2.20/t/21-features.t
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Bio-Das-ProServer-2.20/t/criticrc
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Bio-Das-ProServer-2.20/t/15-escaping.t
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Bio-Das-ProServer-2.20/t/25-alignment-columns.t
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Bio-Das-ProServer-2.20/t/dummy
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Bio-Das-ProServer-2.20/t/dummy/Bio
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Bio-Das-ProServer-2.20/t/dummy/Bio/SeqIO.pm
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Bio-Das-ProServer-2.20/t/dummy/Bio/EnsEMBL
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Bio-Das-ProServer-2.20/t/dummy/Bio/EnsEMBL/Registry.pm
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Bio-Das-ProServer-2.20/t/dummy/Bio/EnsEMBL/DBSQL
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Bio-Das-ProServer-2.20/t/dummy/Bio/EnsEMBL/DBSQL/DBAdaptor.pm
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Bio-Das-ProServer-2.20/t/dummy/Bio/Das
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Bio-Das-ProServer-2.20/t/dummy/Bio/Das/Lite.pm
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Bio-Das-ProServer-2.20/t/dummy/Bio/DB
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Bio-Das-ProServer-2.20/t/dummy/Bio/DB/Flat.pm
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Bio-Das-ProServer-2.20/t/dummy/Cache
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Bio-Das-ProServer-2.20/t/dummy/Cache/FileCache.pm
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Bio-Das-ProServer-2.20/t/dummy/Net
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Bio-Das-ProServer-2.20/t/dummy/Net/IP.pm
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Bio-Das-ProServer-2.20/stylesheets
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Bio-Das-ProServer-2.20/stylesheets/xsl_sources.xsl
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Bio-Das-ProServer-2.20/stylesheets/xsl_features.xsl
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Bio-Das-ProServer-2.20/stylesheets/xsl_types.xsl
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Bio-Das-ProServer-2.20/stylesheets/xsl_homepage.xsl
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Bio-Das-ProServer-2.20/stylesheets/xsl_sequence.xsl
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Bio-Das-ProServer-2.20/stylesheets/xsl_dsn.xsl
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Bio-Das-ProServer-2.20/eg
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Bio-Das-ProServer-2.20/eg/proserver
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Bio-Das-ProServer-2.20/eg/proserver.ini
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Bio-Das-ProServer-2.20/eg/proserver.cgi
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Bio-Das-ProServer-2.20/eg/bed.ini
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Bio-Das-ProServer-2.20/eg/data
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Bio-Das-ProServer-2.20/eg/data/mysimple.txt
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Bio-Das-ProServer-2.20/eg/data/example.bed
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Bio-Das-ProServer-2.20/eg/data/example.gff
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Bio-Das-ProServer-2.20/lib
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Bio-Das-ProServer-2.20/lib/Bio
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Bio-Das-ProServer-2.20/lib/Bio/Das
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceHydra.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/Config.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/Authenticator.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/sif.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/simpledb.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/proxy.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/grouped_db.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/bed12.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/styletest.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/bioseq.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/simple_volmap.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/simple_interaction.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/simple.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/file.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/all_in_group.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/Transport
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/Transport/bioseqio.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/Transport/sif.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/Transport/bed12.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/Transport/dbi.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/Transport/ensembl.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/Transport/oracle.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/Transport/csv.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/Transport/wgetz.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/Transport/getz.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/Transport/martservice.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/Transport/file.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceAdaptor/Transport/generic.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/Authenticator
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/Authenticator/http.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/Authenticator/ip.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceHydra
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceHydra/sql.pm
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Bio-Das-ProServer-2.20/lib/Bio/Das/ProServer/SourceHydra/dbi.pm
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Entering Bio-Das-ProServer-2.20
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Checking configure dependencies from META.yml
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Checking if you have ExtUtils::Install 1.46 ... Yes (2.04)
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Checking if you have Module::Build 0.38 ... Yes (0.4222)
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Running Build.PL
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Configuring Bio-Das-ProServer-2.20 ... Checking prerequisites...
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recommends:
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* Bio::Das::Lite is not installed
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* Bio::EnsEMBL::DBSQL::DBAdaptor is not installed
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* Bio::EnsEMBL::Registry is not installed
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ERRORS/WARNINGS FOUND IN PREREQUISITES. You may wish to install the versions
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of the modules indicated above before proceeding with this installation
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Required modules are core ProServer components and must be installed.
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Recommended modules are completely optional and are only required for certain features.
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For more information please consult the README
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Created MYMETA.yml and MYMETA.json
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Creating new 'Build' script for 'Bio-Das-ProServer' version '2.20'
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Checking dependencies from MYMETA.json ...
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Checking if you have Test::More 0 ... Yes (1.302078)
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Checking if you have POSIX 1.08 ... Yes (1.76)
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Checking if you have HTTP::Date 1.47 ... Yes (6.02)
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Checking if you have POE::Wheel::ReadWrite 1.2199 ... Yes (1.367)
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Checking if you have Socket 1.77 ... Yes (2.024)
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Checking if you have Readonly 1.03 ... Yes (2.05)
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Checking if you have HTTP::Request 1.40 ... Yes (6.11)
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Checking if you have POE::Wheel::SocketFactory 1.2194 ... Yes (1.367)
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Checking if you have Config::IniFiles 2.32 ... Yes (2.94)
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Checking if you have Getopt::Long 2.34 ... Yes (2.49)
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Checking if you have CGI 3.29 ... Yes (4.36)
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Checking if you have Sys::Hostname 1.11 ... Yes (1.20)
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Checking if you have Compress::Zlib 2.005 ... Yes (2.074)
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Checking if you have POE::Filter::HTTPD 1.2188 ... Yes (1.367)
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Checking if you have POE 0.9999 ... Yes (1.367)
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Checking if you have HTTP::Response 1.53 ... Yes (6.11)
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Checking if you have File::Spec 3.25 ... Yes (3.62)
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Checking if you have HTML::Entities 1.27 ... Yes (3.69)
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OK
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Building and testing Bio-Das-ProServer-2.20 ... Building Bio-Das-ProServer
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t/00-pod.t ................ ok
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t/05-config.t ............. ok
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t/10-sourceadaptor.t ...... ok
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t/11-transport-dbi.t ...... ok
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t/11-transport-file.t ..... ok
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t/11-transport-generic.t .. ok
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t/11-transport-oracle.t ... skipped: Oracle transport requires DBI and DBD::Oracle modules
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t/11-transport-sif.t ...... ok
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t/15-escaping.t ........... ok
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t/16-targets.t ............ ok
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t/21-features-parents.t ... ok
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t/21-features-versions.t .. ok
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t/21-features.t ........... ok
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t/25-alignment-columns.t .. ok
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t/25-alignment.t .......... ok
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t/26-interaction.t ........ ok
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t/27-volmap.t ............. ok
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t/32-auth-ip.t ............ ok
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# Failed test 'run test authentication server'
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# at t/33-auth-http.t line 77.
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# Looks like you planned 20 tests but ran 4.
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# Looks like you failed 1 test of 4 run.
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t/33-auth-http.t ..........
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Dubious, test returned 1 (wstat 256, 0x100)
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Failed 17/20 subtests
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t/critic.t ................ skipped: Author test. Set the TEST_AUTHOR environment variable to a true value to run.
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t/distribution.t .......... skipped: Author test. Set the TEST_AUTHOR environment variable to a true value to run.
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Test Summary Report
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-------------------
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t/33-auth-http.t (Wstat: 256 Tests: 4 Failed: 1)
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Failed test: 4
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Non-zero exit status: 1
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Parse errors: Bad plan. You planned 20 tests but ran 4.
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Files=21, Tests=145, 2 wallclock secs ( 0.04 usr 0.01 sys + 1.07 cusr 0.12 csys = 1.24 CPU)
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Result: FAIL
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Failed 1/21 test programs. 1/145 subtests failed.
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! Installing Bio::Das::ProServer failed. See /home/ryan/.cpanm/work/1492123677.4820/build.log for details. Retry with --force to force install it.
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FAIL
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Command [cpanm --reinstall --verbose Bio::Das::ProServer] terminated with exit code 1 ($? = 256) under the following perl environment:
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Command terminated with non-zero status.
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Current perl:
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Name: perl-blead
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Path: /home/ryan/perl5/perlbrew/perls/perl-blead/bin/perl
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Config: -de -Dprefix=/home/ryan/perl5/perlbrew/perls/perl-blead -Dusedevel -Aeval:scriptdir=/home/ryan/perl5/perlbrew/perls/perl-blead/bin
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Compiled at: Mar 30 2017 03:10:09
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perlbrew:
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version: 0.78
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ENV:
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PERLBREW_ROOT: /home/ryan/perl5/perlbrew
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PERLBREW_HOME: /home/ryan/.perlbrew
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PERLBREW_PATH: /home/ryan/perl5/perlbrew/bin:/home/ryan/perl5/perlbrew/perls/perl-blead/bin
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PERLBREW_MANPATH: /home/ryan/perl5/perlbrew/perls/perl-blead/man
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