This distribution has been tested as part of the cpan-testers effort to test as many new uploads to CPAN as possible. See http://testers.cpan.org/
Please cc any replies to [email protected] to keep other test volunteers informed and to prevent any duplicate effort. -- Dear EASR, This is a computer-generated error report created automatically by CPANPLUS, version 0.82. Testers personal comments may appear at the end of this report. Thank you for uploading your work to CPAN. However, it appears that there were some problems testing your distribution. TEST RESULTS: Below is the error stack from stage 'make test': [MSG] [Wed Oct 31 13:43:28 2007] Trying to get 'http://www.cpan.org/authors/id/E/EA/EASR/onto-perl/onto-perl-1.0.tar.gz' [MSG] [Wed Oct 31 13:43:44 2007] Trying to get 'http://www.cpan.org/authors/id/E/EA/EASR/onto-perl/CHECKSUMS' [MSG] [Wed Oct 31 13:43:45 2007] Checksum matches for 'onto-perl-1.0.tar.gz' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/ulo_cco.obo' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/cco_g_dummy.ids' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/test_orthomcl.dat' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/pre_cco.obo' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/nodes_dummy.dmp' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/cco_i_At.ids' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/out_I_A_thaliana.obo' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/goa_assoc.txt' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/cco_b.ids' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/cco_g.ids' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/cco_o.ids' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/goa_assoc_filt.txt' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/cco_u.ids' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/Ath_cc_up.map' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/arath_small-05.xml' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/cco_b_sce.ids' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/out_cco.obo.old' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/names_dummy.dmp' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/test_ulo_cco2.owl' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/Ath_up.map' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/arath_small-07.xml' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/out_omcl.obo' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/cco_id_term.map' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/pre_cco_core.obo' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/cco_b_hsa.ids' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/cco_b_ath.ids' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/up_test.txt' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/alpha.obo' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/cco_t.ids' [MSG] [Wed Oct 31 13:43:47 2007] Extracted 'onto-perl-1.0/t/data/fake_ulo_cco.obo' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/data/out_cco_up.obo' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/data/out_cco.obo' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/data/header.obo' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/data/cco_i.ids' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/SynonymSet.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/GoaAssociation.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/OBOParser.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/Ontology.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/NCBIParser.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/OWLParser.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/TermSet.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/CCO_ID_Set.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/GoaAssociationSet.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/Def.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/CCO_ID.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/Synonym.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/RelationshipType.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/SynonymTypeDef.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/UniProtParser.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/Set.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/IntActParser.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/NewIntActParser.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/OrthoMCLParser.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/CCO_ID_Term_Map.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/GoaParser.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/Dbxref.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/SynonymTypeDefSet.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/IDspace.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/DbxrefSet.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/Term.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/Relationship.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/t/Ontolome.t' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/DbxrefSet.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/ObjectIdSet.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/Set.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/XMLIntactParser.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/CCO_ID_Set.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/CCO_ID_Term_Map.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/SynonymTypeDefSet.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/CCO_ID.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/Ontolome.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/SynonymSet.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/TermSet.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/GoaAssociationSet.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Util/ObjectSet.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Core/' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Core/GoaAssociation.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Core/Synonym.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Core/Def.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Core/Interaction.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Core/Relationship.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Core/SynonymTypeDef.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Core/Term.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Core/Dbxref.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Core/IDspace.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Core/RelationshipType.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Core/Ontology.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Core/Interactor.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Parser/' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Parser/UniProtParser.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Parser/NCBIParser.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Parser/InteractionManager.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Parser/OrthoMCLParser.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Parser/IntActParser.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Parser/OBOParser.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Parser/OWLParser.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Parser/GoaParser.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/CCO/Parser/NewIntActParser.pm' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/Changes' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/MANIFEST' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/scripts/' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/scripts/term_id_vs_term_def.pl' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/scripts/names.xsl' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/scripts/owl2obo.pl' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/scripts/obo2cco.pl' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/scripts/obsolete_term_id_vs_name_in_go.pl' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/scripts/xml2html.xsl' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/scripts/obsolete_term_id_vs_def_in_go.pl' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/scripts/obo2xml.pl' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/scripts/term_id_vs_term_name.pl' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/scripts/obo2owl.pl' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/scripts/go2owl.pl' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/scripts/get_ancestor_terms.pl' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/LICENSE' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/README' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/META.yml' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/onto-perl.pod' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/INSTALL' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto-perl-1.0/Makefile.PL' [MSG] [Wed Oct 31 13:43:48 2007] Extracted 'onto::perl' to '/home/chris/.cpanplus/5.8.8/build/onto-perl-1.0' [MSG] [Wed Oct 31 13:43:50 2007] XML::XPath is missing. This module is only required in order to perform parsing operations with IntAct-XML files. However, this module is not required for using onto-perl. If you do not intend to use IntAct XML files, then you may continue, and install XML::XPath in the future. SWISS::Entry is missing. This module is only required in order to perform parsing operations with UniProt files. However, this module is not required for using onto-perl. If you do not intend to use UniProt files, then you may continue, and install SWISS::Entry in the future. XML::Parser is missing. This module is only required in order to perform parsing operations with XML files (obo2owl). However, this module is not fully required for using onto-perl. If you do not intend to convert your files to OWL, then you may continue, and install XML::Parser in the future. Checking if your kit is complete... Looks good Writing Makefile for CCO [MSG] [Wed Oct 31 13:43:50 2007] DEFAULT 'filter_prereqs' HANDLER RETURNING 'sub return value' [MSG] [Wed Oct 31 13:44:05 2007] cp CCO/Util/DbxrefSet.pm blib/lib/CCO/Util/DbxrefSet.pm cp CCO/Core/GoaAssociation.pm blib/lib/CCO/Core/GoaAssociation.pm cp CCO/Parser/UniProtParser.pm blib/lib/CCO/Parser/UniProtParser.pm cp CCO/Core/SynonymTypeDef.pm blib/lib/CCO/Core/SynonymTypeDef.pm cp CCO/Core/Def.pm blib/lib/CCO/Core/Def.pm cp CCO/Core/Synonym.pm blib/lib/CCO/Core/Synonym.pm cp CCO/Util/ObjectIdSet.pm blib/lib/CCO/Util/ObjectIdSet.pm cp CCO/Core/Term.pm blib/lib/CCO/Core/Term.pm cp CCO/Parser/NCBIParser.pm blib/lib/CCO/Parser/NCBIParser.pm cp CCO/Util/CCO_ID.pm blib/lib/CCO/Util/CCO_ID.pm cp CCO/Core/Interaction.pm blib/lib/CCO/Core/Interaction.pm cp CCO/Util/Ontolome.pm blib/lib/CCO/Util/Ontolome.pm cp CCO/Util/SynonymSet.pm blib/lib/CCO/Util/SynonymSet.pm cp CCO/Util/Set.pm blib/lib/CCO/Util/Set.pm cp CCO/Util/XMLIntactParser.pm blib/lib/CCO/Util/XMLIntactParser.pm cp CCO/Parser/OBOParser.pm blib/lib/CCO/Parser/OBOParser.pm cp CCO/Util/TermSet.pm blib/lib/CCO/Util/TermSet.pm cp CCO/Util/GoaAssociationSet.pm blib/lib/CCO/Util/GoaAssociationSet.pm cp CCO/Util/CCO_ID_Set.pm blib/lib/CCO/Util/CCO_ID_Set.pm cp CCO/Parser/InteractionManager.pm blib/lib/CCO/Parser/InteractionManager.pm cp CCO/Util/CCO_ID_Term_Map.pm blib/lib/CCO/Util/CCO_ID_Term_Map.pm cp CCO/Util/SynonymTypeDefSet.pm blib/lib/CCO/Util/SynonymTypeDefSet.pm cp onto-perl.pod blib/lib/onto-perl.pod cp CCO/Parser/OrthoMCLParser.pm blib/lib/CCO/Parser/OrthoMCLParser.pm cp CCO/Parser/OWLParser.pm blib/lib/CCO/Parser/OWLParser.pm cp CCO/Core/Dbxref.pm blib/lib/CCO/Core/Dbxref.pm cp CCO/Core/IDspace.pm blib/lib/CCO/Core/IDspace.pm cp CCO/Parser/IntActParser.pm blib/lib/CCO/Parser/IntActParser.pm cp CCO/Core/Relationship.pm blib/lib/CCO/Core/Relationship.pm cp CCO/Core/RelationshipType.pm blib/lib/CCO/Core/RelationshipType.pm cp CCO/Util/ObjectSet.pm blib/lib/CCO/Util/ObjectSet.pm cp CCO/Core/Ontology.pm blib/lib/CCO/Core/Ontology.pm cp CCO/Parser/GoaParser.pm blib/lib/CCO/Parser/GoaParser.pm cp CCO/Core/Interactor.pm blib/lib/CCO/Core/Interactor.pm cp CCO/Parser/NewIntActParser.pm blib/lib/CCO/Parser/NewIntActParser.pm cp scripts/term_id_vs_term_name.pl blib/script/term_id_vs_term_name.pl /home/chris/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/term_id_vs_term_name.pl cp scripts/obsolete_term_id_vs_name_in_go.pl blib/script/obsolete_term_id_vs_name_in_go.pl /home/chris/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/obsolete_term_id_vs_name_in_go.pl cp scripts/owl2obo.pl blib/script/owl2obo.pl /home/chris/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/owl2obo.pl cp scripts/go2owl.pl blib/script/go2owl.pl /home/chris/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/go2owl.pl cp scripts/obo2xml.pl blib/script/obo2xml.pl /home/chris/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/obo2xml.pl cp scripts/obsolete_term_id_vs_def_in_go.pl blib/script/obsolete_term_id_vs_def_in_go.pl /home/chris/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/obsolete_term_id_vs_def_in_go.pl cp scripts/obo2owl.pl blib/script/obo2owl.pl /home/chris/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/obo2owl.pl cp scripts/term_id_vs_term_def.pl blib/script/term_id_vs_term_def.pl /home/chris/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/term_id_vs_term_def.pl cp scripts/obo2cco.pl blib/script/obo2cco.pl /home/chris/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/obo2cco.pl cp scripts/get_ancestor_terms.pl blib/script/get_ancestor_terms.pl /home/chris/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/get_ancestor_terms.pl Manifying blib/man1/obsolete_term_id_vs_name_in_go.pl.1 Manifying blib/man1/obsolete_term_id_vs_def_in_go.pl.1 Manifying blib/man1/obo2owl.pl.1 Manifying blib/man1/owl2obo.pl.1 Manifying blib/man1/go2owl.pl.1 Manifying blib/man1/get_ancestor_terms.pl.1 Manifying blib/man3/CCO::Core::GoaAssociation.3 Manifying blib/man3/CCO::Util::DbxrefSet.3 Manifying blib/man3/CCO::Parser::UniProtParser.3 Manifying blib/man3/CCO::Core::SynonymTypeDef.3 Manifying blib/man3/CCO::Core::Def.3 Manifying blib/man3/CCO::Core::Synonym.3 Manifying blib/man3/CCO::Util::ObjectIdSet.3 Manifying blib/man3/CCO::Core::Term.3 Manifying blib/man3/CCO::Parser::NCBIParser.3 Manifying blib/man3/CCO::Util::CCO_ID.3 Manifying blib/man3/CCO::Core::Interaction.3 Manifying blib/man3/CCO::Util::Ontolome.3 Manifying blib/man3/CCO::Util::SynonymSet.3 Manifying blib/man3/CCO::Util::Set.3 Manifying blib/man3/CCO::Util::XMLIntactParser.3 Manifying blib/man3/CCO::Parser::OBOParser.3 Manifying blib/man3/CCO::Util::TermSet.3 Manifying blib/man3/CCO::Util::GoaAssociationSet.3 Manifying blib/man3/CCO::Util::CCO_ID_Set.3 Manifying blib/man3/CCO::Parser::InteractionManager.3 Manifying blib/man3/CCO::Util::CCO_ID_Term_Map.3 Manifying blib/man3/CCO::Util::SynonymTypeDefSet.3 Manifying blib/man3/onto-perl.3 Manifying blib/man3/CCO::Parser::OrthoMCLParser.3 Manifying blib/man3/CCO::Parser::OWLParser.3 Manifying blib/man3/CCO::Core::Dbxref.3 Manifying blib/man3/CCO::Core::IDspace.3 Manifying blib/man3/CCO::Parser::IntActParser.3 Manifying blib/man3/CCO::Core::Relationship.3 Manifying blib/man3/CCO::Core::RelationshipType.3 Manifying blib/man3/CCO::Util::ObjectSet.3 Manifying blib/man3/CCO::Parser::GoaParser.3 Manifying blib/man3/CCO::Core::Ontology.3 Manifying blib/man3/CCO::Parser::NewIntActParser.3 Manifying blib/man3/CCO::Core::Interactor.3 [ERROR] [Wed Oct 31 13:44:33 2007] MAKE TEST failed: PERL_DL_NONLAZY=1 /home/chris/perl588/bin/perl "-MExtUtils::Command::MM" "-e" "test_harness(0, 'blib/lib', 'blib/arch')" t/*.t t/CCO_ID...............ok t/CCO_ID_Set...........ok t/CCO_ID_Term_Map......ok t/Dbxref...............ok t/DbxrefSet............ok t/Def..................ok t/GoaAssociation.......ok t/GoaAssociationSet....ok t/GoaParser............ok t/IDspace..............ok t/IntActParser.........Can't locate XML/Simple.pm in @INC (@INC contains: /home/chris/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib /home/chris/.cpanplus/5.8.8/build/onto-perl-1.0/blib/arch /home/chris/.cpanplus/5.8.8/build/onto-perl-1.0/blib /home/chris/perl588/lib/5.8.8/OpenBSD.i386-openbsd-thread-multi /home/chris/perl588/lib/5.8.8 /home/chris/perl588/lib/site_perl/5.8.8/OpenBSD.i386-openbsd-thread-multi /home/chris/perl588/lib/site_perl/5.8.8 /home/chris/perl588/lib/site_perl .) at /home/chris/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib/CCO/Util/XMLIntactParser.pm line 12. BEGIN failed--compilation aborted at /home/chris/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib/CCO/Util/XMLIntactParser.pm line 12. Compilation failed in require at t/IntActParser.t line 15. BEGIN failed--compilation aborted at t/IntActParser.t line 15. dubious Test returned status 2 (wstat 512, 0x200) DIED. FAILED tests 1-7 Failed 7/7 tests, 0.00% okay t/NCBIParser...........ok t/NewIntActParser......ok 7/8 skipped: various reasons t/OBOParser............ok t/Ontology.............ok t/Ontolome.............ok t/OrthoMCLParser.......ok t/OWLParser............Can't locate XML/Parser.pm in @INC (@INC contains: /home/chris/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib /home/chris/.cpanplus/5.8.8/build/onto-perl-1.0/blib/arch /home/chris/.cpanplus/5.8.8/build/onto-perl-1.0/blib /home/chris/perl588/lib/5.8.8/OpenBSD.i386-openbsd-thread-multi /home/chris/perl588/lib/5.8.8 /home/chris/perl588/lib/site_perl/5.8.8/OpenBSD.i386-openbsd-thread-multi /home/chris/perl588/lib/site_perl/5.8.8 /home/chris/perl588/lib/site_perl .) at /home/chris/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib/CCO/Parser/OWLParser.pm line 17. BEGIN failed--compilation aborted at /home/chris/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib/CCO/Parser/OWLParser.pm line 17. Compilation failed in require at t/OWLParser.t line 14. BEGIN failed--compilation aborted at t/OWLParser.t line 14. dubious Test returned status 2 (wstat 512, 0x200) DIED. FAILED tests 1-4 Failed 4/4 tests, 0.00% okay t/Relationship.........ok t/RelationshipType.....ok t/Set..................ok t/Synonym..............ok t/SynonymSet...........ok t/SynonymTypeDef.......ok t/SynonymTypeDefSet....ok t/Term.................ok t/TermSet..............ok t/UniProtParser........ok 12/12 skipped: various reasons Failed Test Stat Wstat Total Fail List of Failed ------------------------------------------------------------------------------- t/IntActParser.t 2 512 7 14 1-7 t/OWLParser.t 2 512 4 8 1-4 19 subtests skipped. Failed 2/28 test scripts. 11/733 subtests failed. Files=28, Tests=733, 27 wallclock secs (10.54 cusr + 13.74 csys = 24.28 CPU) Failed 2/28 test programs. 11/733 subtests failed. *** Error code 35 Stop in /home/chris/.cpanplus/5.8.8/build/onto-perl-1.0 (line 1058 of Makefile). [MSG] [Wed Oct 31 13:44:33 2007] DEFAULT 'proceed_on_test_failure' HANDLER RETURNING 'sub return value' MISSING PREREQUISITES: It was observed that the test suite seem to fail without these modules: XML::Simple XML::Parser As such, adding the prerequisite module(s) to 'PREREQ_PM' in your Makefile.PL should solve this problem. For example: WriteMakefile( AUTHOR => 'EASR ([EMAIL PROTECTED])', ... # other information PREREQ_PM => { 'XML::Simple' => '0', # or a minimum working version 'XML::Parser' => '0', # or a minimum working version } ); If you are interested in making a more flexible Makefile.PL that can probe for missing dependencies and install them, ExtUtils::AutoInstall at <http://search.cpan.org/dist/ExtUtils-AutoInstall/> may be worth a look. Thanks! :-) ******************************** 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 CPAN::YACSmoke 0.0307. ------------------------------ ENVIRONMENT AND OTHER CONTEXT ------------------------------ Environment variables: AUTOMATED_TESTING = 1 PATH = /home/chris/bin:/bin:/sbin:/usr/bin:/usr/sbin:/usr/X11R6/bin:/usr/local/bin:/usr/local/sbin:/usr/games:. PERL5LIB = :/home/chris/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib:/home/chris/.cpanplus/5.8.8/build/onto-perl-1.0/blib/arch:/home/chris/.cpanplus/5.8.8/build/onto-perl-1.0/blib PERL5_CPANPLUS_IS_RUNNING = 233 PERL5_CPANPLUS_IS_VERSION = 0.82 PERL_MM_USE_DEFAULT = 1 SHELL = /bin/ksh TERM = screen Perl special variables (and OS-specific diagnostics, for MSWin32): Perl: $^X = /home/chris/perl588/bin/perl UID: $< = 1000 EUID: $> = 1000 GID: $( = 10 0 10 EGID: $) = 10 0 10 ------------------------------- -- Summary of my perl5 (revision 5 version 8 subversion 8) configuration: Platform: osname=openbsd, osvers=4.1, archname=OpenBSD.i386-openbsd-thread-multi uname='openbsd flurble.bingosnet.co.uk 4.1 generic#1435 i386 ' config_args='' hint=recommended, useposix=true, d_sigaction=define usethreads=define use5005threads=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='cc', ccflags ='-pthread -fno-strict-aliasing -fno-delete-null-pointer-checks -pipe -I/usr/local/include', optimize='-O2', cppflags='-pthread -fno-strict-aliasing -fno-delete-null-pointer-checks -pipe -I/usr/local/include' ccversion='', gccversion='3.3.5 (propolice)', gccosandvers='openbsd4.1' intsize=4, longsize=4, ptrsize=4, doublesize=8, byteorder=1234 d_longlong=define, longlongsize=8, d_longdbl=define, longdblsize=12 ivtype='long', ivsize=4, nvtype='double', nvsize=8, Off_t='off_t', lseeksize=8 alignbytes=4, prototype=define Linker and Libraries: ld='cc', ldflags ='-pthread -Wl,-E -L/usr/local/lib' libpth=/usr/local/lib /usr/lib libs=-lm -lutil -lc perllibs=-lm -lutil -lc libc=/usr/lib/libc.so.40.3, so=so, useshrplib=false, libperl=libperl.a gnulibc_version='' Dynamic Linking: dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags=' ' cccdlflags='-DPIC -fPIC ', lddlflags='-shared -fPIC -L/usr/local/lib'
