Warning: prerequisite Bio::Seq 1.5 not found. WARNING: ** You do not have XML::Parser::PerlSAX installed ** This tool is not required for the core of chaos-xml perl lib, but it is required for parsing chaos-xml documents. It is not required for generating chaos from genbank Writing Makefile for Bio-Chaos cp lib/Bio/Chaos/ChaosGraph.pm blib/lib/Bio/Chaos/ChaosGraph.pm cp lib/Bio/Chaos/FeatureUtil.pm blib/lib/Bio/Chaos/FeatureUtil.pm cp lib/Bio/Chaos/XSLTHelper.pm blib/lib/Bio/Chaos/XSLTHelper.pm cp lib/Bio/Chaos/xsl/chado-create-feature-nesting.xsl blib/lib/Bio/Chaos/xsl/chado-create-feature-nesting.xsl cp lib/Bio/Chaos/Root.pm blib/lib/Bio/Chaos/Root.pm cp lib/Bio/Chaos/xsl/chado-remove-feature-nesting.xsl blib/lib/Bio/Chaos/xsl/chado-remove-feature-nesting.xsl cp lib/Bio/Chaos/xsl/chado-remove-default-elements.xsl blib/lib/Bio/Chaos/xsl/chado-remove-default-elements.xsl cp lib/Bio/Chaos/xsl/chado-feature-summary-html.xsl blib/lib/Bio/Chaos/xsl/chado-feature-summary-html.xsl cp lib/Bio/Chaos.pm blib/lib/Bio/Chaos.pm cp lib/Bio/Chaos/xsl/chado-expand-macros.xsl blib/lib/Bio/Chaos/xsl/chado-expand-macros.xsl cp lib/Bio/Chaos/xsl/cx-chaos-to-chaos.xsl blib/lib/Bio/Chaos/xsl/cx-chaos-to-chaos.xsl cp lib/Bio/Chaos/xsl/cx-chaos-to-dbxref-tbl.xsl blib/lib/Bio/Chaos/xsl/cx-chaos-to-dbxref-tbl.xsl cp lib/Bio/Chaos/xsl/cx-chado-to-chaos.xsl blib/lib/Bio/Chaos/xsl/cx-chado-to-chaos.xsl cp lib/Bio/Chaos/Parser/fasta.pm blib/lib/Bio/Chaos/Parser/fasta.pm cp lib/Bio/Chaos/Handler/gff3_to_chaos.pm blib/lib/Bio/Chaos/Handler/gff3_to_chaos.pm cp lib/Bio/Chaos/Parser/base_parser.pm blib/lib/Bio/Chaos/Parser/base_parser.pm cp lib/Bio/Chaos/xsl/cx-chaos-to-feature-summary-tbl.xsl blib/lib/Bio/Chaos/xsl/cx-chaos-to-feature-summary-tbl.xsl cp lib/Bio/Chaos/xsl/chado-insert-macros.xsl blib/lib/Bio/Chaos/xsl/chado-insert-macros.xsl cp lib/Bio/Chaos/xsl/cx-chaos-to-gff3.xsl blib/lib/Bio/Chaos/xsl/cx-chaos-to-gff3.xsl cp lib/Bio/Chaos/xsl/cx-chaos-to-chado.xsl blib/lib/Bio/Chaos/xsl/cx-chaos-to-chado.xsl cp lib/Bio/Chaos/Parser/gff3.pm blib/lib/Bio/Chaos/Parser/gff3.pm cp lib/Bio/Chaos/xsl/chado-to-gff3.xsl blib/lib/Bio/Chaos/xsl/chado-to-gff3.xsl cp lib/Bio/Chaos/Handler/base_handler.pm blib/lib/Bio/Chaos/Handler/base_handler.pm cp lib/Bio/Chaos/DB/Chado.pm blib/lib/Bio/Chaos/DB/Chado.pm cp bin/cx-download-enscore.pl blib/script/cx-download-enscore.pl /Users/cpanrun/build/5.10.0/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/cx-download-enscore.pl cp bin/cx-genbank2chaos.pl blib/script/cx-genbank2chaos.pl /Users/cpanrun/build/5.10.0/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/cx-genbank2chaos.pl cp bin/cx-enscore2chaos.pl blib/script/cx-enscore2chaos.pl /Users/cpanrun/build/5.10.0/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/cx-enscore2chaos.pl cp bin/cx-chadoxml2chaos.pl blib/script/cx-chadoxml2chaos.pl /Users/cpanrun/build/5.10.0/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/cx-chadoxml2chaos.pl cp bin/cx-chaos-report.pl blib/script/cx-chaos-report.pl /Users/cpanrun/build/5.10.0/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)" blib/script/cx-chaos-report.pl Manifying blib/man1/cx-genbank2chaos.pl.1 Manifying blib/man1/cx-chadoxml2chaos.pl.1 Manifying blib/man1/cx-chaos-report.pl.1 Manifying blib/man3/Bio::Chaos::ChaosGraph.3 Manifying blib/man3/Bio::Chaos::FeatureUtil.3 Manifying blib/man3/Bio::Chaos::Handler::gff3_to_chaos.3 Manifying blib/man3/Bio::Chaos::Parser::base_parser.3 Manifying blib/man3/Bio::Chaos::XSLTHelper.3 Manifying blib/man3/Bio::Chaos::Root.3 Manifying blib/man3/Bio::Chaos.3 Manifying blib/man3/Bio::Chaos::Parser::gff3.3 Manifying blib/man3/Bio::Chaos::Parser::fasta.3 Manifying blib/man3/Bio::Chaos::Handler::base_handler.3 Manifying blib/man3/Bio::Chaos::DB::Chado.3 PERL_DL_NONLAZY=1 /Users/cpanrun/build/5.10.0/bin/perl "-MExtUtils::Command::MM" "-e" "test_harness(1, 'blib/lib', 'blib/arch')" t/*.t t/00parse_gb_to_chaos....1..6 # Running under perl version 5.010000 for darwin # Current time local: Thu Nov 22 00:57:07 2007 # Current time GMT: Thu Nov 22 08:57:07 2007 # Using Test.pm version 1.25 Can't locate Bio/Root/Root.pm in @INC (@INC contains: /Users/cpanrun/depot/main/contrib-patched/perl/CPAN/src/Bio-Chaos/blib/lib /Users/cpanrun/depot/main/contrib-patched/perl/CPAN/src/Bio-Chaos/blib/arch /Users/cpanrun/depot/main/Apps/CPAN_Run/lib /Users/cpanrun/build/5.10.0/site/lib /Users/cpanrun/build/5.10.0/lib . /Users/cpanrun/build/5.10.0/site/lib /Users/cpanrun/build/5.10.0/lib .) at /Users/cpanrun/depot/main/contrib-patched/perl/CPAN/src/Bio-Chaos/blib/lib/Bio/Chaos/Root.pm line 36. BEGIN failed--compilation aborted at /Users/cpanrun/depot/main/contrib-patched/perl/CPAN/src/Bio-Chaos/blib/lib/Bio/Chaos/Root.pm line 36. Compilation failed in require at /Users/cpanrun/depot/main/contrib-patched/perl/CPAN/src/Bio-Chaos/blib/lib/Bio/Chaos/ChaosGraph.pm line 45. BEGIN failed--compilation aborted at /Users/cpanrun/depot/main/contrib-patched/perl/CPAN/src/Bio-Chaos/blib/lib/Bio/Chaos/ChaosGraph.pm line 45. Compilation failed in require at t/00parse_gb_to_chaos.t line 16. BEGIN failed--compilation aborted at t/00parse_gb_to_chaos.t line 16. dubious Test returned status 2 (wstat 512, 0x200) DIED. FAILED tests 1-6 Failed 6/6 tests, 0.00% okay t/02roundtrip............Can't locate Bio/Root/Root.pm in @INC (@INC contains: /Users/cpanrun/depot/main/contrib-patched/perl/CPAN/src/Bio-Chaos/blib/lib /Users/cpanrun/depot/main/contrib-patched/perl/CPAN/src/Bio-Chaos/blib/arch /Users/cpanrun/depot/main/Apps/CPAN_Run/lib /Users/cpanrun/build/5.10.0/site/lib /Users/cpanrun/build/5.10.0/lib . /Users/cpanrun/build/5.10.0/site/lib /Users/cpanrun/build/5.10.0/lib .) at /Users/cpanrun/depot/main/contrib-patched/perl/CPAN/src/Bio-Chaos/blib/lib/Bio/Chaos/Root.pm line 36. BEGIN failed--compilation aborted at /Users/cpanrun/depot/main/contrib-patched/perl/CPAN/src/Bio-Chaos/blib/lib/Bio/Chaos/Root.pm line 36. Compilation failed in require at (eval 1) line 3. ...propagated at /Users/cpanrun/build/5.10.0/lib/base.pm line 93. BEGIN failed--compilation aborted at /Users/cpanrun/depot/main/contrib-patched/perl/CPAN/src/Bio-Chaos/blib/lib/Bio/Chaos.pm line 33. Compilation failed in require at t/02roundtrip.t line 7. BEGIN failed--compilation aborted at t/02roundtrip.t line 7. dubious Test returned status 2 (wstat 512, 0x200) Failed Test Stat Wstat Total Fail List of Failed ------------------------------------------------------------------------------- t/00parse_gb_to_chaos.t 2 512 6 12 1-6 t/02roundtrip.t 2 512 ?? ?? ?? Failed 2/2 test scripts. 6/6 subtests failed. Files=2, Tests=6, 0 wallclock secs ( 0.15 cusr + 0.05 csys = 0.20 CPU) Failed 2/2 test programs. 6/6 subtests failed. make: *** [test_dynamic] Error 2