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 0.83_09. 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 'fetch': [MSG] [Tue Jan 15 16:22:05 2008] Trying to get 'ftp://ftp.cpan.org/pub/CPAN/authors/id/E/EA/EASR/ONTO-PERL/ONTO-PERL-1.09.tar.gz' [MSG] [Tue Jan 15 16:22:08 2008] Trying to get 'ftp://ftp.cpan.org/pub/CPAN/authors/id/E/EA/EASR/ONTO-PERL/CHECKSUMS' [MSG] [Tue Jan 15 16:22:09 2008] Checksum matches for 'ONTO-PERL-1.09.tar.gz' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/cco_g_dummy.ids' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/nodes_dummy.dmp' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/cco_i_At.ids' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/goa_assoc.txt' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/cco_g.ids' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/cco_o.ids' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/Ath_cc_up.map' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/out_cco.obo.old' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/names_dummy.dmp' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/arath_small-07.xml' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/pre_cco_core.obo' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/cco_b_hsa.ids' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/cco_b_ath.ids' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/cco_t.ids' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/out_cco_up.obo' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/cco_i.ids' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/ulo_cco.obo' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/test_orthomcl.dat' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/pre_cco.obo' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/out_I_A_thaliana.obo' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/cco_b.ids' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/goa_assoc_filt.txt' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/cco_u.ids' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/arath_small-05.xml' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/cco_b_sce.ids' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/test_ulo_cco2.owl' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/Ath_up.map' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/out_omcl.obo' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/cco_id_term.map' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/up_test.txt' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/alpha.obo' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/fake_ulo_cco.obo' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/out_cco.obo' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/header.obo' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/data/cell.obo' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/GoaAssociation.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/Ontology.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/CCO_ID_Set.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/Def.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/RelationshipType.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/Set.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/IntActParser.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/NewIntActParser.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/OrthoMCLParser.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/CCO_ID_Term_Map.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/SynonymTypeDefSet.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/IDspace.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/Term.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/Ontolome.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/SynonymSet.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/OBOParser.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/NCBIParser.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/OWLParser.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/TermSet.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/GoaAssociationSet.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/CCO_ID.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/Synonym.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/SynonymTypeDef.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/UniProtParser.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/GoaParser.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/Dbxref.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/DbxrefSet.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/t/Relationship.t' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/XMLIntactParser.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/NewIntActParser.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/GoaParser.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/CCO_ID.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/InteractionManager.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/OrthoMCLParser.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/CCO_ID_Term_Map.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/NCBIParser.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/Interactor.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/GoaAssociationSet.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/CCO_ID_Set.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/Interaction.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/IntActParser.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/CCO/UniProtParser.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Util/' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Util/Set.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Util/DbxrefSet.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Util/ObjectSet.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Util/Ontolome.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Util/TermSet.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Util/ObjectIdSet.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Util/SynonymSet.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Util/SynonymTypeDefSet.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Core/' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Core/Synonym.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Core/Dbxref.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Core/SynonymTypeDef.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Core/Relationship.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Core/Term.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Core/Ontology.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Core/Def.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Core/IDspace.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Core/RelationshipType.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Core/GoaAssociation.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Parser/' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Parser/OBOParser.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/OBO/Parser/OWLParser.pm' [MSG] [Tue Jan 15 16:22:09 2008] Extracted 'ONTO-PERL-1.09/Changes' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example12.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example11.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example06.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example04.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example09.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example02.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example07.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example05.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example10.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example08.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example03.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example01.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example13.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/doc/example00.html' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/get_descendent_terms.pl' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/owl2obo.pl' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/obo2cco.pl' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/xml2html.xsl' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/term_id_vs_term_name.pl' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/go2owl.pl' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/term_id_vs_term_def.pl' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/names.xsl' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/obsolete_term_id_vs_name_in_go.pl' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/obsolete_term_id_vs_def_in_go.pl' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/obo2xml.pl' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/obo2owl.pl' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/scripts/get_ancestor_terms.pl' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/README' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/META.yml' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/ONTO-PERL.pod' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/INSTALL' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/Makefile.PL' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/MANIFEST' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO-PERL-1.09/LICENSE' [MSG] [Tue Jan 15 16:22:10 2008] Extracted 'ONTO::PERL' to '/home/plu/blead/.cpanplus/5.10.0/build/ONTO-PERL-1.09' [MSG] [Tue Jan 15 16:22:10 2008] 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 ONTO-PERL [MSG] [Tue Jan 15 16:22:10 2008] DEFAULT 'filter_prereqs' HANDLER RETURNING 'sub return value' [ERROR] [Tue Jan 15 16:22:10 2008] MAKE failed: Illegal seek cp ONTO-PERL.pod blib/lib/ONTO-PERL.pod make: don't know how to make scripts/obo2rdf.pl. Stop ******************************** 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 = /usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/bin/X11 PERL5_CPANPLUS_IS_RUNNING = 40631 PERL5_CPANPLUS_IS_VERSION = 0.83_09 PERL_MM_USE_DEFAULT = 1 SHELL = /usr/local/bin/bash TERM = screen Perl special variables (and OS-specific diagnostics, for MSWin32): Perl: $^X = /home/plu/blead/bin/perl UID: $< = 1001 EUID: $> = 1001 GID: $( = 1001 1001 1001 0 EGID: $) = 1001 1001 1001 0 ------------------------------- -- Summary of my perl5 (revision 5 version 10 subversion 0 patch 32559) configuration: Platform: osname=freebsd, osvers=6.2-release, archname=amd64-freebsd uname='freebsd smoker 6.2-release freebsd 6.2-release #1: sat nov 17 18:48:00 cet 2007 [EMAIL PROTECTED]:usrobjusrsrcsysdelta amd64 ' config_args='' hint=recommended, useposix=true, d_sigaction=define useithreads=undef, usemultiplicity=undef useperlio=define, d_sfio=undef, uselargefiles=define, usesocks=undef use64bitint=define, use64bitall=define, uselongdouble=undef usemymalloc=n, bincompat5005=undef Compiler: cc='cc', ccflags ='-DHAS_FPSETMASK -DHAS_FLOATINGPOINT_H -fno-strict-aliasing -pipe -I/usr/local/include', optimize='-O', cppflags='-DHAS_FPSETMASK -DHAS_FLOATINGPOINT_H -fno-strict-aliasing -pipe -I/usr/local/include' ccversion='', gccversion='3.4.6 [FreeBSD] 20060305', gccosandvers='' intsize=4, longsize=8, ptrsize=8, doublesize=8, byteorder=12345678 d_longlong=define, longlongsize=8, d_longdbl=define, longdblsize=16 ivtype='long', ivsize=8, nvtype='double', nvsize=8, Off_t='off_t', lseeksize=8 alignbytes=8, prototype=define Linker and Libraries: ld='cc', ldflags ='-Wl,-E -L/usr/local/lib' libpth=/usr/lib /usr/local/lib libs=-lm -lcrypt -lutil -lc perllibs=-lm -lcrypt -lutil -lc libc=, 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 -L/usr/local/lib'
