Warning: prerequisite Bio::Seq failed to load: Can't locate Bio/Seq.pm in @INC (@INC contains: /export/home/cpanrun/depot/main/Apps/CPAN_Run/lib /export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/5.6.1 /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1 /export/home/cpanrun/build/5.6.1/lib/site_perl .) at (eval 5) line 3. 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/xsl/cx-chaos-to-dbxref-tbl.xsl blib/lib/Bio/Chaos/xsl/cx-chaos-to-dbxref-tbl.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/base_parser.pm blib/lib/Bio/Chaos/Parser/base_parser.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/xsl/cx-chaos-to-feature-summary-tbl.xsl blib/lib/Bio/Chaos/xsl/cx-chaos-to-feature-summary-tbl.xsl cp lib/Bio/Chaos/DB/Chado.pm blib/lib/Bio/Chaos/DB/Chado.pm cp lib/Bio/Chaos/XSLTHelper.pm blib/lib/Bio/Chaos/XSLTHelper.pm cp lib/Bio/Chaos/xsl/chado-remove-default-elements.xsl blib/lib/Bio/Chaos/xsl/chado-remove-default-elements.xsl cp lib/Bio/Chaos/Parser/fasta.pm blib/lib/Bio/Chaos/Parser/fasta.pm cp lib/Bio/Chaos/Parser/gff3.pm blib/lib/Bio/Chaos/Parser/gff3.pm cp lib/Bio/Chaos.pm blib/lib/Bio/Chaos.pm cp lib/Bio/Chaos/FeatureUtil.pm blib/lib/Bio/Chaos/FeatureUtil.pm cp lib/Bio/Chaos/xsl/chado-feature-summary-html.xsl blib/lib/Bio/Chaos/xsl/chado-feature-summary-html.xsl cp lib/Bio/Chaos/Handler/gff3_to_chaos.pm blib/lib/Bio/Chaos/Handler/gff3_to_chaos.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/cx-chaos-to-chaos.xsl blib/lib/Bio/Chaos/xsl/cx-chaos-to-chaos.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/Root.pm blib/lib/Bio/Chaos/Root.pm cp lib/Bio/Chaos/xsl/cx-chado-to-chaos.xsl blib/lib/Bio/Chaos/xsl/cx-chado-to-chaos.xsl cp lib/Bio/Chaos/xsl/chado-insert-macros.xsl blib/lib/Bio/Chaos/xsl/chado-insert-macros.xsl cp lib/Bio/Chaos/xsl/chado-to-gff3.xsl blib/lib/Bio/Chaos/xsl/chado-to-gff3.xsl cp lib/Bio/Chaos/xsl/chado-expand-macros.xsl blib/lib/Bio/Chaos/xsl/chado-expand-macros.xsl cp lib/Bio/Chaos/Handler/base_handler.pm blib/lib/Bio/Chaos/Handler/base_handler.pm cp lib/Bio/Chaos/ChaosGraph.pm blib/lib/Bio/Chaos/ChaosGraph.pm cp bin/cx-download-enscore.pl blib/script/cx-download-enscore.pl /export/home/cpanrun/build/5.6.1/bin/perl -I/export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi -I/export/home/cpanrun/build/5.6.1/lib/5.6.1 -MExtUtils::MakeMaker -e "MY->fixin(shift)" blib/script/cx-download-enscore.pl cp bin/cx-genbank2chaos.pl blib/script/cx-genbank2chaos.pl /export/home/cpanrun/build/5.6.1/bin/perl -I/export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi -I/export/home/cpanrun/build/5.6.1/lib/5.6.1 -MExtUtils::MakeMaker -e "MY->fixin(shift)" blib/script/cx-genbank2chaos.pl cp bin/cx-chaos-report.pl blib/script/cx-chaos-report.pl /export/home/cpanrun/build/5.6.1/bin/perl -I/export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi -I/export/home/cpanrun/build/5.6.1/lib/5.6.1 -MExtUtils::MakeMaker -e "MY->fixin(shift)" blib/script/cx-chaos-report.pl cp bin/cx-enscore2chaos.pl blib/script/cx-enscore2chaos.pl /export/home/cpanrun/build/5.6.1/bin/perl -I/export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi -I/export/home/cpanrun/build/5.6.1/lib/5.6.1 -MExtUtils::MakeMaker -e "MY->fixin(shift)" blib/script/cx-enscore2chaos.pl cp bin/cx-chadoxml2chaos.pl blib/script/cx-chadoxml2chaos.pl /export/home/cpanrun/build/5.6.1/bin/perl -I/export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi -I/export/home/cpanrun/build/5.6.1/lib/5.6.1 -MExtUtils::MakeMaker -e "MY->fixin(shift)" blib/script/cx-chadoxml2chaos.pl bin/cx-chadoxml2chaos.pl:72: Unknown command paragraph "=Head1 REQUIREMENTS" Manifying blib/man3/Bio::Chaos::FeatureUtil.3 Manifying blib/man1/cx-genbank2chaos.pl.1 Manifying blib/man3/Bio::Chaos::Parser::base_parser.3 Manifying blib/man1/cx-chaos-report.pl.1 Manifying blib/man3/Bio::Chaos::Handler::gff3_to_chaos.3 Manifying blib/man3/Bio::Chaos::Root.3 Manifying blib/man3/Bio::Chaos::DB::Chado.3 Manifying blib/man3/Bio::Chaos::XSLTHelper.3 Manifying blib/man3/Bio::Chaos::Handler::base_handler.3 Manifying blib/man1/cx-chadoxml2chaos.pl.1 Manifying blib/man3/Bio::Chaos::Parser::gff3.3 Manifying blib/man3/Bio::Chaos::Parser::fasta.3 Manifying blib/man3/Bio::Chaos::ChaosGraph.3 Manifying blib/man3/Bio::Chaos.3 PERL_DL_NONLAZY=1 /export/home/cpanrun/build/5.6.1/bin/perl -Iblib/arch -Iblib/lib -I/export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi -I/export/home/cpanrun/build/5.6.1/lib/5.6.1 -e 'use Test::Harness qw(&runtests $verbose); $verbose=0; runtests @ARGV;' t/*.t t/00parse_gb_to_chaos.Can't locate Bio/Root/Root.pm in @INC (@INC contains: blib/arch blib/lib /export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/5.6.1 /export/home/cpanrun/depot/main/Apps/CPAN_Run/lib /export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/5.6.1 /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1 /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1 /export/home/cpanrun/build/5.6.1/lib/site_perl . /export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/5.6.1 /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1 /export/home/cpanrun/build/5.6.1/lib/site_perl .) at blib/lib/Bio/Chaos/Root.pm line 36. BEGIN failed--compilation aborted at blib/lib/Bio/Chaos/Root.pm line 36. Compilation failed in require at blib/lib/Bio/Chaos/ChaosGraph.pm line 45. BEGIN failed--compilation aborted at 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: blib/arch blib/lib /export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/5.6.1 /export/home/cpanrun/depot/main/Apps/CPAN_Run/lib /export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/5.6.1 /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1 /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1 /export/home/cpanrun/build/5.6.1/lib/site_perl . /export/home/cpanrun/build/5.6.1/lib/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/5.6.1 /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1/sun4-solaris-thread-multi /export/home/cpanrun/build/5.6.1/lib/site_perl/5.6.1 /export/home/cpanrun/build/5.6.1/lib/site_perl .) at blib/lib/Bio/Chaos/Root.pm line 36. BEGIN failed--compilation aborted at blib/lib/Bio/Chaos/Root.pm line 36. Compilation failed in require at (eval 1) line 3. ...propagated at /export/home/cpanrun/build/5.6.1/lib/5.6.1/base.pm line 62. BEGIN failed--compilation aborted at 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 Status Wstat Total Fail Failed List of Failed -------------------------------------------------------------------------------- t/00parse_gb_to_chaos.t 2 512 6 6 100.00% 1-6 t/02roundtrip.t 2 512 ?? ?? % ?? Failed 2/2 test scripts, 0.00% okay. 6/6 subtests failed, 0.00% okay. make: *** [test_dynamic] Error 2