October 2006 Archives by thread

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Starting: Sun Oct 1 01:45:06 EDT 2006
Ending: Tue Oct 31 17:26:33 EST 2006
Messages: 595

• [Bioperl-guts-l] bioperl-live/Bio Seq.pm,1.92,1.93   Jason Stajich
• [Bioperl-guts-l] bioperl-live/t/data/seqfeaturedb test.gff3, 1.3, 1.4   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/DB SeqFeature.pm,1.10,1.11   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature/Store GFF3Loader.pm, 1.21, 1.22   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature NormalizedFeature.pm, 1.16, 1.17   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/t BioDBSeqFeature.t,1.2,1.3   Lincoln Stein
• [Bioperl-guts-l] bioperl-network/Bio/Network/IO psi.pm,1.6,1.7   Brian Osborne
• [Bioperl-guts-l] bioperl-network/Bio/Network/IO psi.pm,1.7,1.8   Brian Osborne
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature NormalizedFeature.pm, 1.17, 1.18   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/Graphics FeatureBase.pm, 1.14, 1.15   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/DB SeqHound.pm,1.6,1.7   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/t SeqHound_DB.t,1.4,1.5   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Graphics/Glyph dna.pm, 1.27, 1.28 segments.pm, 1.50, 1.51   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/Restriction/IO bairoch.pm, 1.9, 1.10   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tools/SiRNA/Ruleset saigo.pm, 1.5, 1.6   Torsten Seemann
• [Bioperl-guts-l] bioperl-network/Bio/Network/IO psi.pm,1.8,1.9   Brian Osborne
• [Bioperl-guts-l] bioperl-live/Bio/SearchIO/Writer HTMLResultWriter.pm, 1.39, 1.40   Torsten Seemann
• [Bioperl-guts-l] bioperl-live INSTALL,1.50,1.51   Christopher John Fields
• [Bioperl-guts-l] bioperl-live INSTALL,1.51,1.52   Christopher John Fields
• [Bioperl-guts-l] bioperl-network/Bio/Network/IO psi.pm,1.9,1.10   Brian Osborne
• [Bioperl-guts-l] bioperl-live/Bio/DB MeSH.pm,1.9,1.10   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tools RestrictionEnzyme.pm, 1.37, 1.38   Torsten Seemann
• [Bioperl-guts-l] bioperl-live DEPRECATED,1.11,1.12   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Search/Iteration GenericIteration.pm, 1.9, 1.10   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/PopGen/Simulation GeneticDrift.pm, 1.6, 1.7 Coalescent.pm, 1.12, 1.13   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/DB SeqVersion.pm,1.7,1.8   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Search/Hit HmmpfamHit.pm, 1.4, 1.5 BlastHit.pm, 1.18, 1.19   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Search/HSP HmmpfamHSP.pm, 1.4, 1.5   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Search/Result BlastResult.pm, 1.25, 1.26 HmmpfamResult.pm, 1.4, 1.5   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/PopGen Statistics.pm,1.35,1.36   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/AlignIO mega.pm,1.13,1.14   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/TreeIO TreeEventBuilder.pm, 1.24, 1.25   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO/tinyseq tinyseqHandler.pm, 1.7, 1.8   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio AnnotatableI.pm, 1.15, 1.16 SearchIO.pm, 1.40, 1.41 ClusterI.pm, 1.7, 1.8   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tools SiRNA.pm, 1.14, 1.15 QRNA.pm, 1.6, 1.7 RepeatMasker.pm, 1.12, 1.13 Est2Genome.pm, 1.18, 1.19   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO tinyseq.pm,1.9,1.10   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Cluster FamilyI.pm,1.7,1.8   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Symbol SymbolI.pm,1.10,1.11   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tools/SiRNA/Ruleset tuschl.pm, 1.6, 1.7   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/OntologyIO/Handlers InterProHandler.pm, 1.17, 1.18   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Coordinate ResultI.pm, 1.7, 1.8 MapperI.pm, 1.11, 1.12 Result.pm, 1.16, 1.17 Pair.pm, 1.20, 1.21   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/OntologyIO InterProParser.pm, 1.13, 1.14   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/SearchIO hmmer_pull.pm,1.5,1.6   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tree AlleleNode.pm, 1.14, 1.15 DistanceFactory.pm, 1.9, 1.10   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Coordinate/Result Gap.pm, 1.10, 1.11 Match.pm, 1.10, 1.11   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Event EventGeneratorI.pm, 1.13, 1.14   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Ontology Ontology.pm, 1.22, 1.23 InterProTerm.pm, 1.12, 1.13 PathI.pm, 1.8, 1.9 OntologyI.pm, 1.10, 1.11   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Seq SeqBuilder.pm,1.10,1.11   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/SeqFeature/SiRNA Pair.pm, 1.7, 1.8 Oligo.pm, 1.7, 1.8   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Search/Hit GenericHit.pm, 1.39, 1.40 BlastHit.pm, 1.19, 1.20 PsiBlastHit.pm, 1.10, 1.11   Torsten Seemann
• [Bioperl-guts-l] bioperl-live DEPRECATED,1.12,1.13   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/DB/Biblio soap.pm, 1.12, 1.13 biofetch.pm, 1.14, 1.15   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Search/HSP PsiBlastHSP.pm, 1.11, 1.12 BlastHSP.pm, 1.32, 1.33   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Search/Hit PsiBlastHit.pm, 1.11, 1.12   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Factory AnalysisI.pm,1.8,1.9   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Biblio/IO pubmed2ref.pm, 1.7, 1.8 medline2ref.pm, 1.16, 1.17 pubmedxml.pm, 1.9, 1.10 medlinexml.pm, 1.10, 1.11   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/DB BiblioI.pm,1.11,1.12   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio Biblio.pm, 1.18, 1.19 WebAgent.pm, 1.14, 1.15 SimpleAnalysisI.pm, 1.10, 1.11 AnalysisI.pm, 1.12, 1.13   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tools RestrictionEnzyme.pm, 1.38, 1.39   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Root Root.pm, 1.39, 1.40 Object.pm, 1.36, 1.37 RootI.pm, 1.73, 1.74   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/SearchIO/Writer HTMLResultWriter.pm, 1.40, 1.41   Torsten Seemann
• [Bioperl-guts-l] [Bug 2115] New: entregene tests - pseudo-hash warnings for line 467   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2115] entregene tests - pseudo-hash warnings for line 467   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2115] entregene tests - pseudo-hash warnings for line 467   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2116] New: t/RootIO.t tests - filehandle warning Bio/Root/IO.pm line 469   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2116] t/RootIO.t tests - filehandle warning Bio/Root/IO.pm line 469   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/t RootIO.t,1.7,1.8   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/t RootIO.t,1.8,1.9   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Root HTTPget.pm,1.16,1.17   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t XEMBL_DB.t,1.5,1.6   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature NormalizedFeature.pm, 1.18, 1.19   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature/Store GFF3Loader.pm, 1.22, 1.23   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature NormalizedFeature.pm, 1.19, 1.20   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature/Store GFF3Loader.pm, 1.23, 1.24   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/Graphics FeatureBase.pm, 1.15, 1.16   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/Root IO.pm,1.64,1.65   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/FeatureIO ptt.pm,1.3,1.4   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature Store.pm, 1.23, 1.24   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/t Species.t,1.13,1.14   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t NetPhos.t,1.11,1.12   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live AUTHORS,1.51,1.52   Brian Osborne
• [Bioperl-guts-l] bioperl-live/examples/tools run_primer3.pl, 1.3, 1.4   Brian Osborne
• [Bioperl-guts-l] bioperl-live/scripts/utilities mutate.PLS, 1.11, 1.12   Brian Osborne
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO genbank.pm,1.151,1.152   Brian Osborne
• [Bioperl-guts-l] bioperl-live/Bio SimpleAlign.pm,1.113,1.114   Brian Osborne
• [Bioperl-guts-l] bioperl-live/Bio/Tools Primer3.pm,1.22,1.23   Brian Osborne
• [Bioperl-guts-l] bioperl-live/Bio/Index Swissprot.pm,1.28,1.29   Brian Osborne
• [Bioperl-guts-l] bioperl-live/Bio/DB EntrezGene.pm, 1.9, 1.10 SeqVersion.pm, 1.8, 1.9   Brian Osborne
• [Bioperl-guts-l] bioperl-network AUTHORS,1.1,1.2   Brian Osborne
• [Bioperl-guts-l] bioperl-network/t Edge.t,1.1,1.2   Brian Osborne
• [Bioperl-guts-l] bioperl-network/Bio/Network/IO dip_tab.pm, 1.5, 1.6 psi.pm, 1.10, 1.11   Brian Osborne
• [Bioperl-guts-l] bioperl-network/Bio/Network/IO/psi intact.pm, 1.5, 1.6   Brian Osborne
• [Bioperl-guts-l] bioperl-network/Bio/Network Edge.pm, 1.5, 1.6 IO.pm, 1.7, 1.8 Interaction.pm, 1.5, 1.6 Node.pm, 1.4, 1.5 ProteinNet.pm, 1.11, 1.12   Brian Osborne
• [Bioperl-guts-l] bioperl-live/t DB.t,1.69,1.70   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Graphics/Glyph segments.pm, 1.51, 1.52   Lincoln Stein
• [Bioperl-guts-l] bioperl-network/Bio/Network/IO psi.pm,1.11,1.12   Brian Osborne
• [Bioperl-guts-l] [Bug 2117] New: Analysis_soap test fails   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2117] Analysis_soap test fails   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2117] Analysis_soap test fails   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2117] Analysis_soap test fails   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2117] Analysis_soap test fails   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2117] Analysis_soap test fails   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2117] Analysis_soap test fails   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2117] Analysis_soap test fails   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/Bio/Tools BPlite.pm, 1.43, 1.44 RestrictionEnzyme.pm, 1.39, 1.40   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/Tools BPbl2seq.pm, 1.30, 1.31 BPpsilite.pm, 1.29, 1.30   Christopher John Fields
• [Bioperl-guts-l] bioperl-live DEPRECATED,1.13,1.14   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/Search/HSP GenericHSP.pm, 1.74, 1.75   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t DBCUTG.t,1.22,1.23   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t OntologyStore.t,1.1,1.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t ESEfinder.t,1.14,1.15   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools BPbl2seq.pm, 1.31, 1.32 BPlite.pm, 1.44, 1.45 BPpsilite.pm, 1.30, 1.31 RestrictionEnzyme.pm, 1.40, 1.41   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/Root Err.pm, 1.24, NONE Global.pm, 1.10, NONE IOManager.pm, 1.23, NONE Object.pm, 1.37, NONE Utilities.pm, 1.37, NONE Vector.pm, 1.20, NONE Xref.pm, 1.17, NONE   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t Root-Utilities.t,1.1,NONE   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live Changes,1.49,1.50   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live INSTALL,1.52,1.53   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live INSTALL.WIN,1.20,1.21   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live README,1.45,1.46   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live AUTHORS, 1.49.2.1, 1.49.2.2 Changes, 1.49, 1.49.4.1 DEPRECATED, 1.9, 1.9.4.1 INSTALL, 1.47.4.2, 1.47.4.3 INSTALL.WIN, 1.20, 1.20.4.1 Makefile.PL, 1.94.4.2, 1.94.4.3 README, 1.45, 1.45.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Assembly Contig.pm, 1.11.4.2, 1.11.4.3 ContigAnalysis.pm, 1.6, 1.6.4.1 IO.pm, 1.6.4.2, 1.6.4.3 Scaffold.pm, 1.12, 1.12.4.1 ScaffoldI.pm, 1.6, 1.6.4.1 Singlet.pm, 1.9, 1.9.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/AlignIO bl2seq.pm, 1.23.4.2, 1.23.4.3 clustalw.pm, 1.37.4.2, 1.37.4.3 emboss.pm, 1.17.4.2, 1.17.4.3 fasta.pm, 1.27, 1.27.4.1 largemultifasta.pm, 1.9.4.2, 1.9.4.3 maf.pm, 1.10, 1.10.4.1 mase.pm, 1.11.4.2, 1.11.4.3 mega.pm, 1.11.4.2, 1.11.4.3 meme.pm, 1.10.4.2, 1.10.4.3 metafasta.pm, 1.6, 1.6.4.1 msf.pm, 1.22.4.2, 1.22.4.3 nexus.pm, 1.27, 1.27.4.1 pfam.pm, 1.12.4.2, 1.12.4.3 phylip.pm, 1.36.4.2, 1.36.4.3 po.pm, 1.6.4.1, 1.6.4.2 prodom.pm, 1.10.4.2, 1.10.4.3 psi.pm, 1.11, 1.11.4.1 selex.pm, 1.14.4.2, 1.14.4.3 stockholm.pm, 1.15.4.2, 1.15.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Annotation AnnotationFactory.pm, 1.6, 1.6.4.1 Collection.pm, 1.23, 1.23.4.1 Comment.pm, 1.12, 1.12.6.1 DBLink.pm, 1.18, 1.18.6.1 OntologyTerm.pm, 1.15.4.2, 1.15.4.3 Reference.pm, 1.24.4.2, 1.24.4.3 SimpleValue.pm, 1.18.4.2, 1.18.4.3 StructuredValue.pm, 1.7.4.2, 1.7.4.3 Target.pm, 1.7.4.2, 1.7.4.3 TypeManager.pm, 1.6.4.2, 1.6.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Assembly/IO ace.pm, 1.13, 1.13.4.1 phrap.pm, 1.5, 1.5.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Biblio Article.pm, 1.14.4.2, 1.14.4.3 BiblioBase.pm, 1.13, 1.13.4.1 Book.pm, 1.14.4.2, 1.14.4.3 BookArticle.pm, 1.13.4.2, 1.13.4.3 IO.pm, 1.17.4.2, 1.17.4.3 Journal.pm, 1.13.4.2, 1.13.4.3 JournalArticle.pm, 1.14.4.2, 1.14.4.3 MedlineArticle.pm, 1.12, 1.12.4.1 MedlineBook.pm, 1.10.4.2, 1.10.4.3 MedlineBookArticle.pm, 1.10.4.2, 1.10.4.3 MedlineJournal.pm, 1.10, 1.10.4.1 MedlineJournalArticle.pm, 1.10.4.2, 1.10.4.3 Organisation.pm, 1.14, 1.14.4.1 Patent.pm, 1.14, 1.14.4.1 Person.pm, 1.15.4.2, 1.15.4.3 Proceeding.pm, 1.13, 1.13.4.1 Provider.pm, 1.11, 1.11.4.1 PubmedArticle.pm, 1.9.4.2, 1.9.4.3 PubmedBookArticle.pm, 1.9.4.2, 1.9.4.3 PubmedJournalArticle.pm, 1.10.4.2, 1.10.4.3 Ref.pm, 1.12.4.2, 1.12.4.3 Service.pm, 1.13, 1.13.4.1 TechReport.pm, 1.12.4.2, 1.12.4.3 Thesis.pm, 1.12, 1.12.4.1 WebResource.pm, 1.13.4.2, 1.13.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Align AlignI.pm, 1.16, 1.16.4.1 DNAStatistics.pm, 1.32.4.1, 1.32.4.2 PairwiseStatistics.pm, 1.10, 1.10.4.1 ProteinStatistics.pm, 1.7, 1.7.4.1 StatisticsI.pm, 1.7, 1.7.4.1 Utilities.pm, 1.20.4.2, 1.20.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio AlignIO.pm, 1.46.4.3, 1.46.4.4 AnalysisI.pm, 1.10, 1.10.4.1 AnalysisParserI.pm, 1.12, 1.12.4.1 AnalysisResultI.pm, 1.10, 1.10.4.1 AnnotatableI.pm, 1.12, 1.12.4.1 AnnotationCollectionI.pm, 1.17.4.3, 1.17.4.4 AnnotationI.pm, 1.10.4.3, 1.10.4.4 Biblio.pm, 1.16, 1.16.4.1 ClusterI.pm, 1.6, 1.6.4.1 ClusterIO.pm, 1.18, 1.18.4.1 DBLinkContainerI.pm, 1.12, 1.12.4.1 DasI.pm, 1.18.4.3, 1.18.4.4 DescribableI.pm, 1.10, 1.10.4.1 FeatureHolderI.pm, 1.10, 1.10.4.1 FeatureIO.pm, 1.15.4.1, 1.15.4.2 Graphics.pm, 1.17, 1.17.4.1 IdCollectionI.pm, 1.6, 1.6.4.1 IdentifiableI.pm, 1.11.4.3, 1.11.4.4 LocatableSeq.pm, 1.39.4.3, 1.39.4.4 LocationI.pm, 1.25, 1.25.4.1 MapIO.pm, 1.9, 1.9.4.1 OntologyIO.pm, 1.12, 1.12.4.1 Perl.pm, 1.26.4.3, 1.26.4.4 PrimarySeq.pm, 1.95.4.3, 1.95.4.4 PrimarySeqI.pm, 1.65.4.3, 1.65.4.4 PullParserI.pm, 1.1.2.3, 1.1.2.4 Range.pm, 1.27, 1.27.4.1 RangeI.pm, 1.49, 1.49.4.1 SearchDist.pm, 1.20.4.3, 1.20.4.4 SearchIO.pm, 1.39, 1.39.4.1 Seq.pm, 1.91, 1.91.4.1 SeqAnalysisParserI.pm, 1.16, 1.16.4.1 SeqFeatureI.pm, 1.66.4.3! , 1.66.4.4 SeqI.pm, 1.29.4.3, 1.29.4.4 SeqIO.pm, 1.92.4.3, 1.92.4.4 SeqUtils.pm, 1.34, 1.34.2.1 SimpleAlign.pm, 1.108.2.3, 1.108.2.4 SimpleAnalysisI.pm, 1.9, 1.9.4.1 Species.pm, 1.35.4.2, 1.35.4.3 Taxon.pm, 1.1.4.1, 1.1.4.2 Taxonomy.pm, 1.8, 1.8.4.1 TreeIO.pm, 1.20, 1.20.4.1 UpdateableSeqI.pm, 1.7, 1.7.4.1 WebAgent.pm, 1.12, 1.12.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/ClusterIO dbsnp.pm, 1.16, 1.16.4.1 unigene.pm, 1.29, 1.29.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Cluster ClusterFactory.pm, 1.6, 1.6.4.1 FamilyI.pm, 1.6, 1.6.4.1 SequenceFamily.pm, 1.10, 1.10.4.1 UniGene.pm, 1.38, 1.38.4.1 UniGeneI.pm, 1.16, 1.16.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Biblio/IO medline2ref.pm, 1.15, 1.15.4.1 medlinexml.pm, 1.9, 1.9.4.1 pubmed2ref.pm, 1.6, 1.6.4.1 pubmedxml.pm, 1.8, 1.8.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/CodonUsage IO.pm, 1.11, 1.11.4.1 Table.pm, 1.14, 1.14.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Coordinate/Result Gap.pm, 1.9, 1.9.4.1 Match.pm, 1.9, 1.9.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Coordinate Chain.pm, 1.7, 1.7.4.1 Collection.pm, 1.24, 1.24.4.1 ExtrapolatingPair.pm, 1.16, 1.16.4.1 GeneMapper.pm, 1.27, 1.27.4.1 Graph.pm, 1.10, 1.10.4.1 MapperI.pm, 1.10, 1.10.4.1 Pair.pm, 1.19, 1.19.4.1 Result.pm, 1.15, 1.15.4.1 ResultI.pm, 1.6, 1.6.4.1 Utils.pm, 1.16, 1.16.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/Biblio biofetch.pm, 1.10.4.1, 1.10.4.2 eutils.pm, 1.11, 1.11.4.1 pdf.pm, 1.6, 1.6.4.1 soap.pm, 1.10, 1.10.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB Ace.pm, 1.15.4.1, 1.15.4.2 BiblioI.pm, 1.10, 1.10.4.1 BioFetch.pm, 1.29, 1.29.4.1 CUTG.pm, 1.11.4.1, 1.11.4.2 DBFetch.pm, 1.13.4.1, 1.13.4.2 EMBL.pm, 1.21, 1.21.4.1 EUtilities.pm, 1.24.4.1, 1.24.4.2 EntrezGene.pm, 1.8, 1.8.4.1 Expression.pm, 1.4, 1.4.4.1 Failover.pm, 1.10.4.1, 1.10.4.2 Fasta.pm, 1.44.4.2, 1.44.4.3 FileCache.pm, 1.11.4.1, 1.11.4.2 Flat.pm, 1.24, 1.24.4.1 GDB.pm, 1.20.4.1, 1.20.4.2 GFF.pm, 1.139, 1.139.4.1 GenBank.pm, 1.59, 1.59.4.1 GenPept.pm, 1.31, 1.31.4.1 GenericWebDBI.pm, 1.3, 1.3.4.1 InMemoryCache.pm, 1.7.4.1, 1.7.4.2 LocationI.pm, 1.1.2.1, 1.1.2.2 MeSH.pm, 1.8, 1.8.4.1 NCBIHelper.pm, 1.54, 1.54.2.1 QueryI.pm, 1.5, 1.5.4.1 RandomAccessI.pm, 1.14.4.1, 1.14.4.2 RefSeq.pm, 1.13, 1.13.4.1 ReferenceI.pm, 1.1.2.1, 1.1.2.2 Registry.pm, 1.32.4.1, 1.32.4.2 SeqFeature.pm, 1.7.4.1, 1.7.4.2 SeqHound.pm, 1.4, 1.4.4.1 SeqI.pm, 1.10, 1.10.4.1 SeqVersion.pm, 1.5, 1.5.4.1 SwissProt.pm, 1.30, 1.30.4.1 Taxonomy.pm, 1.11.4.1, 1.11.4.2 Universal.pm, 1.5, 1.5.4.1 UpdateableSeqI.pm, 1.8, 1.8.4.1 WebDBSeqI.pm, 1.57, 1.5! 7.2.1 XEMBL.pm, 1.10, 1.10.4.1 XEMBLService.pm, 1.8, 1.8.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/EUtilities Cookie.pm, 1.3.4.1, 1.3.4.2 ElinkData.pm, 1.12.4.1, 1.12.4.2 efetch.pm, 1.8, 1.8.4.1 egquery.pm, 1.6, 1.6.4.1 einfo.pm, 1.8.4.1, 1.8.4.2 elink.pm, 1.24.4.1, 1.24.4.2 epost.pm, 1.7, 1.7.4.1 esearch.pm, 1.11.4.1, 1.11.4.2 esummary.pm, 1.8, 1.8.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/GFF Aggregator.pm, 1.30, 1.30.6.1 Featname.pm, 1.9, 1.9.14.1 Feature.pm, 1.75, 1.75.2.1 Homol.pm, 1.5, 1.5.12.1 RelSegment.pm, 1.51, 1.51.4.1 Segment.pm, 1.30, 1.30.4.1 Typename.pm, 1.8, 1.8.8.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/Flat/BDB embl.pm, 1.13, 1.13.4.1 fasta.pm, 1.9, 1.9.4.1 genbank.pm, 1.8, 1.8.4.1 swiss.pm, 1.7, 1.7.4.1 swissprot.pm, 1.7, 1.7.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/GFF/Adaptor/memory feature_serializer.pm, 1.2, 1.2.6.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/Flat BDB.pm, 1.17, 1.17.4.1 BinarySearch.pm, 1.23, 1.23.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/Expression geo.pm, 1.2, 1.2.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/GFF/Adaptor berkeleydb.pm, 1.24, 1.24.4.1 biofetch.pm, 1.17, 1.17.8.1 biofetch_oracle.pm, 1.4, 1.4.8.1 dbi.pm, 1.60, 1.60.4.1 memory.pm, 1.46, 1.46.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/GFF/Adaptor/dbi caching_handle.pm, 1.12, 1.12.8.1 mysql.pm, 1.66, 1.66.4.1 mysqlace.pm, 1.2, 1.2.12.1 mysqlcmap.pm, 1.6, 1.6.4.1 mysqlopt.pm, 1.34, 1.34.12.1 oracle.pm, 1.9, 1.9.4.1 oracleace.pm, 1.1, 1.1.12.1 pg.pm, 1.20, 1.20.4.1 pg_fts.pm, 1.2, 1.2.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature/Store/DBI Iterator.pm, 1.1, 1.1.4.1 mysql.pm, 1.20.4.2, 1.20.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Event EventGeneratorI.pm, 1.11, 1.11.4.1 EventHandlerI.pm, 1.9, 1.9.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Expression Contact.pm, 1.4, 1.4.4.1 DataSet.pm, 1.3, 1.3.4.1 Platform.pm, 1.4, 1.4.4.1 Sample.pm, 1.3, 1.3.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/Taxonomy entrez.pm, 1.18, 1.18.4.1 flatfile.pm, 1.15, 1.15.4.1 list.pm, 1.1.4.2, 1.1.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature NormalizedFeature.pm, 1.13.4.2, 1.13.4.3 Segment.pm, 1.13, 1.13.4.1 Store.pm, 1.21.4.2, 1.21.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/GFF/Aggregator alignment.pm, 1.12, 1.12.6.1 clone.pm, 1.11, 1.11.6.1 coding.pm, 1.2, 1.2.6.1 match.pm, 1.1, 1.1.10.1 none.pm, 1.4, 1.4.8.1 processed_transcript.pm, 1.6, 1.6.6.1 so_transcript.pm, 1.1, 1.1.6.1 transcript.pm, 1.9, 1.9.8.1 ucsc_acembly.pm, 1.3, 1.3.8.1 ucsc_ensgene.pm, 1.3, 1.3.8.1 ucsc_genscan.pm, 1.3, 1.3.8.1 ucsc_refgene.pm, 1.3, 1.3.8.1 ucsc_sanger22.pm, 1.3, 1.3.8.1 ucsc_sanger22pseudo.pm, 1.3, 1.3.8.1 ucsc_softberry.pm, 1.3, 1.3.8.1 ucsc_twinscan.pm, 1.3, 1.3.8.1 ucsc_unigene.pm, 1.3, 1.3.8.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature/Store GFF3Loader.pm, 1.15.4.2, 1.15.4.3 bdb.pm, 1.3, 1.3.4.1 berkeleydb.pm, 1.5.4.2, 1.5.4.3 memory.pm, 1.5.4.2, 1.5.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Das FeatureTypeI.pm, 1.6, 1.6.4.1 SegmentI.pm, 1.11, 1.11.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/Query GenBank.pm, 1.18, 1.18.2.1 WebQuery.pm, 1.15, 1.15.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqVersion gi.pm,1.4,1.4.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/GFF/Util Binning.pm, 1.7, 1.7.6.1 Rearrange.pm, 1.3, 1.3.8.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Expression/FeatureGroup FeatureGroupMas50.pm, 1.2, 1.2.8.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Expression/FeatureSet FeatureSetMas50.pm, 1.2, 1.2.6.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Graph/SimpleGraph Traversal.pm, 1.16, 1.16.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/FeatureIO ptt.pm, NONE, 1.4.2.1 bed.pm, 1.4.4.1, 1.4.4.2 gff.pm, 1.43.4.1, 1.43.4.2 gtf.pm, 1.4, 1.4.4.1 interpro.pm, 1.9, 1.9.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Factory AnalysisI.pm, 1.7, 1.7.4.1 ApplicationFactoryI.pm, 1.10, 1.10.4.1 DriverFactory.pm, 1.15, 1.15.4.1 FTLocationFactory.pm, 1.21.4.1, 1.21.4.2 HitFactoryI.pm, 1.11, 1.11.4.1 LocationFactoryI.pm, 1.7, 1.7.4.1 MapFactoryI.pm, 1.8, 1.8.4.1 ObjectBuilderI.pm, 1.5, 1.5.4.1 ObjectFactory.pm, 1.5, 1.5.4.1 ObjectFactoryI.pm, 1.6, 1.6.4.1 ResultFactoryI.pm, 1.10, 1.10.4.1 SeqAnalysisParserFactory.pm, 1.15, 1.15.4.1 SeqAnalysisParserFactoryI.pm, 1.12, 1.12.4.1 SequenceFactoryI.pm, 1.10, 1.10.4.1 SequenceProcessorI.pm, 1.4, 1.4.4.1 SequenceStreamI.pm, 1.6, 1.6.4.1 TreeFactoryI.pm, 1.10, 1.10.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Graph/IO dip.pm, 1.14, 1.14.4.1 psi_xml.pm, 1.13, 1.13.2.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Graph Edge.pm, 1.11, 1.11.4.1 IO.pm, 1.17, 1.17.4.1 ProteinGraph.pm, 1.35, 1.35.4.1 SimpleGraph.pm, 1.12, 1.12.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Graphics ConfiguratorI.pm, 1.8, 1.8.4.1 FeatureBase.pm, 1.12, 1.12.4.1 FeatureFile.pm, 1.78.4.2, 1.78.4.3 Glyph.pm, 1.113.4.2, 1.113.4.3 Panel.pm, 1.119.4.1, 1.119.4.2 Pictogram.pm, 1.14, 1.14.4.1 RendererI.pm, 1.6, 1.6.4.1 Util.pm, 1.4, 1.4.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Graphics/Glyph Factory.pm, 1.26, 1.26.4.1 alignment.pm, 1.4, 1.4.8.1 anchored_arrow.pm, 1.10, 1.10.4.1 arrow.pm, 1.29, 1.29.4.1 box.pm, 1.6, 1.6.8.1 broken_line.pm, 1.2, 1.2.6.1 cds.pm, 1.35, 1.35.4.1 christmas_arrow.pm, 1.2, 1.2.6.1 crossbox.pm, 1.6, 1.6.8.1 dashed_line.pm, 1.3, 1.3.6.1 diamond.pm, 1.13, 1.13.6.1 dna.pm, 1.25, 1.25.4.1 dot.pm, 1.7, 1.7.6.1 dumbbell.pm, 1.4, 1.4.6.1 ellipse.pm, 1.5, 1.5.8.1 ex.pm, 1.5, 1.5.8.1 extending_arrow.pm, 1.3, 1.3.8.1 flag.pm, 1.2, 1.2.6.1 generic.pm, 1.40.2.1, 1.40.2.2 graded_segments.pm, 1.18, 1.18.6.1 group.pm, 1.10, 1.10.4.1 heterogeneous_segments.pm, 1.9, 1.9.4.1 image.pm, 1.3, 1.3.4.1 lightning.pm, 1.2, 1.2.4.1 line.pm, 1.6, 1.6.4.1 merge_parts.pm, 1.2, 1.2.6.1 merged_alignment.pm, 1.4, 1.4.6.1 minmax.pm, 1.2, 1.2.6.1 oval.pm, 1.4, 1.4.8.1 pentagram.pm, 1.2, 1.2.6.1 pinsertion.pm, 1.7, 1.7.8.1 primers.pm, 1.7.4.2, 1.7.4.3 processed_transcript.pm, 1.12, 1.12.4.1 protein.pm, 1.2, 1.2.4.1 ragged_ends.pm, 1.1, 1.1.6.1 redgreen_box.pm, 1.5, 1.5.8.1 redgreen_segment.pm, 1.3, 1.3.1! 0.1 repeating_shape.pm, 1.2, 1.2.6.1 ruler_arrow.pm, 1.5, 1.5.12.1 saw_teeth.pm, 1.3, 1.3.6.1 segmented_keyglyph.pm, 1.6, 1.6.6.1 segments.pm, 1.44.2.1, 1.44.2.2 so_transcript.pm, 1.2, 1.2.6.1 span.pm, 1.6, 1.6.8.1 splice_site.pm, 1.3, 1.3.10.1 text_in_box.pm, 1.2, 1.2.6.1 three_letters.pm, 1.2, 1.2.6.1 tic_tac_toe.pm, 1.2, 1.2.6.1 toomany.pm, 1.5, 1.5.8.1 track.pm, 1.10, 1.10.6.1 transcript.pm, 1.23, 1.23.4.1 transcript2.pm, 1.28, 1.28.4.1 translation.pm, 1.36.4.1, 1.36.4.2 triangle.pm, 1.11, 1.11.6.1 two_bolts.pm, 1.2, 1.2.6.1 wave.pm, 1.2, 1.2.6.1 weighted_arrow.pm, 1.2, 1.2.6.1 whiskerplot.pm, 1.2, 1.2.6.1 xyplot.pm, 1.26, 1.26.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/MapIO fpc.pm, 1.6.4.1, 1.6.4.2 mapmaker.pm, 1.10, 1.10.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/LiveSeq/IO BioPerl.pm, 1.20, 1.20.4.1 Loader.pm, 1.19, 1.19.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Matrix/IO phylip.pm, 1.3, 1.3.4.1 scoring.pm, 1.4, 1.4.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Matrix Generic.pm, 1.14, 1.14.4.1 IO.pm, 1.5, 1.5.4.1 MatrixI.pm, 1.4, 1.4.4.1 PhylipDist.pm, 1.16, 1.16.4.1 Scoring.pm, 1.4, 1.4.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Index Abstract.pm, 1.49, 1.49.4.1 AbstractSeq.pm, 1.24, 1.24.4.1 Blast.pm, 1.21, 1.21.4.1 EMBL.pm, 1.32, 1.32.4.1 Fasta.pm, 1.35, 1.35.4.1 Fastq.pm, 1.12, 1.12.4.1 GenBank.pm, 1.23, 1.23.4.1 Hmmer.pm, 1.10, 1.10.4.1 Qual.pm, 1.9, 1.9.4.1 SwissPfam.pm, 1.24, 1.24.4.1 Swissprot.pm, 1.26, 1.26.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/LiveSeq AARange.pm, 1.12, 1.12.4.1 DNA.pm, 1.11, 1.11.4.1 Exon.pm, 1.10, 1.10.4.1 Gene.pm, 1.15, 1.15.4.1 Intron.pm, 1.9, 1.9.4.1 Mutation.pm, 1.13, 1.13.4.1 Mutator.pm, 1.33.4.2, 1.33.4.3 Prim_Transcript.pm, 1.9, 1.9.4.1 Range.pm, 1.9, 1.9.4.1 Repeat_Region.pm, 1.9, 1.9.4.1 Repeat_Unit.pm, 1.9, 1.9.4.1 SeqI.pm, 1.31, 1.31.4.1 Transcript.pm, 1.21, 1.21.4.1 Translation.pm, 1.15, 1.15.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Map Clone.pm, 1.6, 1.6.4.1 Contig.pm, 1.6, 1.6.4.1 CytoMap.pm, 1.10, 1.10.4.1 CytoMarker.pm, 1.12, 1.12.4.1 CytoPosition.pm, 1.16, 1.16.4.1 EntityI.pm, 1.3, 1.3.4.1 FPCMarker.pm, 1.7.4.2, 1.7.4.3 LinkageMap.pm, 1.17, 1.17.4.1 LinkagePosition.pm, 1.15, 1.15.4.1 MapI.pm, 1.15.4.1, 1.15.4.2 Mappable.pm, 1.6.4.1, 1.6.4.2 MappableI.pm, 1.17.4.1, 1.17.4.2 Marker.pm, 1.22.4.1, 1.22.4.2 MarkerI.pm, 1.16.4.1, 1.16.4.2 Microsatellite.pm, 1.13, 1.13.4.1 OrderedPosition.pm, 1.12, 1.12.4.1 OrderedPositionWithDistance.pm, 1.10, 1.10.4.1 Physical.pm, 1.8.4.2, 1.8.4.3 Position.pm, 1.18, 1.18.4.1 PositionHandler.pm, 1.3, 1.3.4.1 PositionHandlerI.pm, 1.2, 1.2.4.1 PositionI.pm, 1.17, 1.17.4.1 Relative.pm, 1.1.4.1, 1.1.4.2 RelativeI.pm, 1.1.4.1, 1.1.4.2 SimpleMap.pm, 1.17.4.1, 1.17.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Location Atomic.pm, 1.16, 1.16.4.1 AvWithinCoordPolicy.pm, 1.8, 1.8.4.1 CoordinatePolicyI.pm, 1.8, 1.8.4.1 Fuzzy.pm, 1.33.4.1, 1.33.4.2 FuzzyLocationI.pm, 1.21, 1.21.4.1 NarrowestCoordPolicy.pm, 1.11, 1.11.4.1 Simple.pm, 1.41, 1.41.4.1 Split.pm, 1.46, 1.46.4.1 SplitLocationI.pm, 1.18, 1.18.4.1 WidestCoordPolicy.pm, 1.10, 1.10.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Ontology/SimpleGOEngine GraphAdaptor.pm, 1.6, 1.6.4.1 GraphAdaptor02.pm, 1.6, 1.6.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Phenotype Correlate.pm, 1.9, 1.9.4.1 Measure.pm, 1.9, 1.9.4.1 Phenotype.pm, 1.12, 1.12.4.1 PhenotypeI.pm, 1.11, 1.11.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Ontology DocumentRegistry.pm, 1.11, 1.11.4.1 GOterm.pm, 1.22, 1.22.4.1 InterProTerm.pm, 1.10, 1.10.4.1 OBOEngine.pm, 1.6.4.2, 1.6.4.3 OBOterm.pm, 1.5, 1.5.4.1 Ontology.pm, 1.18.4.2, 1.18.4.3 OntologyEngineI.pm, 1.15, 1.15.4.1 OntologyI.pm, 1.9, 1.9.4.1 OntologyStore.pm, 1.13, 1.13.4.1 Path.pm, 1.7, 1.7.4.1 PathI.pm, 1.6, 1.6.4.1 Relationship.pm, 1.14, 1.14.4.1 RelationshipFactory.pm, 1.5, 1.5.4.1 RelationshipI.pm, 1.9, 1.9.4.1 RelationshipType.pm, 1.17, 1.17.4.1 SimpleGOEngine.pm, 1.36, 1.36.4.1 SimpleOntologyEngine.pm, 1.17.4.2, 1.17.4.3 Term.pm, 1.31, 1.31.4.1 TermFactory.pm, 1.7, 1.7.4.1 TermI.pm, 1.17, 1.17.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/OntologyIO InterProParser.pm, 1.11, 1.11.4.1 dagflat.pm, 1.29, 1.29.4.1 goflat.pm, 1.7, 1.7.4.1 obo.pm, 1.8.4.3, 1.8.4.4 simplehierarchy.pm, 1.17, 1.17.4.1 soflat.pm, 1.7, 1.7.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Matrix/PSM/IO mast.pm, 1.21.4.1, 1.21.4.2 masta.pm, 1.10.4.2, 1.10.4.3 meme.pm, 1.20, 1.20.4.1 psiblast.pm, 1.11, 1.11.4.1 transfac.pm, 1.14.4.2, 1.14.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Matrix/PSM IO.pm, 1.15, 1.15.4.1 InstanceSite.pm, 1.14.4.1, 1.14.4.2 InstanceSiteI.pm, 1.10, 1.10.4.1 ProtMatrix.pm, 1.16, 1.16.4.1 ProtPsm.pm, 1.8, 1.8.4.1 Psm.pm, 1.14, 1.14.4.1 PsmHeader.pm, 1.11, 1.11.4.1 PsmHeaderI.pm, 1.10, 1.10.4.1 PsmI.pm, 1.8, 1.8.4.1 SiteMatrix.pm, 1.31.4.2, 1.31.4.3 SiteMatrixI.pm, 1.16, 1.16.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/OntologyIO/Handlers BaseSAXHandler.pm, 1.4, 1.4.6.1 InterProHandler.pm, 1.15, 1.15.4.1 InterPro_BioSQL_Handler.pm, 1.7, 1.7.6.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Phenotype/MeSH Term.pm, 1.7, 1.7.4.1 Twig.pm, 1.7, 1.7.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Restriction/Enzyme MultiCut.pm, 1.7, 1.7.4.1 MultiSite.pm, 1.7, 1.7.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Restriction/IO bairoch.pm, 1.8, 1.8.4.1 base.pm, 1.11, 1.11.4.1 itype2.pm, 1.6, 1.6.4.1 withrefm.pm, 1.8, 1.8.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Root Exception.pm, 1.15, 1.15.8.1 HTTPget.pm, 1.14, 1.14.4.1 IO.pm, 1.61, 1.61.4.1 Root.pm, 1.35, 1.35.6.1 RootI.pm, 1.69.4.3, 1.69.4.4 Storable.pm, 1.7, 1.7.4.1 Version.pm, 1.9, 1.9.4.1 Err.pm, 1.21, NONE Global.pm, 1.9, NONE IOManager.pm, 1.19, NONE Object.pm, 1.31, NONE Utilities.pm, 1.31, NONE Vector.pm, 1.17, NONE Xref.pm, 1.15, NONE   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/PopGen/Simulation Coalescent.pm, 1.11, 1.11.4.1 GeneticDrift.pm, 1.5, 1.5.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Phenotype/OMIM MiniMIMentry.pm, 1.9, 1.9.4.1 OMIMentry.pm, 1.16, 1.16.4.1 OMIMentryAllelicVariant.pm, 1.9, 1.9.4.1 OMIMparser.pm, 1.20, 1.20.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/PopGen/IO csv.pm, 1.8, 1.8.4.1 hapmap.pm, 1.8, 1.8.4.1 phase.pm, 1.7, 1.7.4.1 prettybase.pm, 1.8, 1.8.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Restriction Analysis.pm, 1.19, 1.19.4.1 Enzyme.pm, 1.16, 1.16.4.1 EnzymeCollection.pm, 1.10, 1.10.4.1 EnzymeI.pm, 1.6, 1.6.4.1 IO.pm, 1.12, 1.12.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/PopGen Genotype.pm, 1.10, 1.10.4.1 GenotypeI.pm, 1.3, 1.3.4.1 HtSNP.pm, 1.6, 1.6.4.1 IO.pm, 1.6, 1.6.4.1 Individual.pm, 1.15, 1.15.4.1 IndividualI.pm, 1.7, 1.7.4.1 Marker.pm, 1.7, 1.7.4.1 MarkerI.pm, 1.6, 1.6.4.1 PopStats.pm, 1.10, 1.10.4.1 Population.pm, 1.19, 1.19.4.1 PopulationI.pm, 1.9, 1.9.4.1 Statistics.pm, 1.34, 1.34.4.1 TagHaplotype.pm, 1.5, 1.5.4.1 Utilities.pm, 1.7, 1.7.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Search/Iteration GenericIteration.pm, 1.6.4.1, 1.6.4.2 IterationI.pm, 1.8, 1.8.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Search BlastStatistics.pm, 1.5, 1.5.4.1 BlastUtils.pm, 1.10, 1.10.8.1 DatabaseI.pm, 1.10, 1.10.4.1 GenericDatabase.pm, 1.9, 1.9.4.1 GenericStatistics.pm, 1.6, 1.6.2.1 Processor.pm, 1.12, 1.12.4.1 SearchUtils.pm, 1.17.4.2, 1.17.4.3 StatisticsI.pm, 1.5, 1.5.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Search/HSP BlastHSP.pm, 1.28, 1.28.4.1 FastaHSP.pm, 1.10, 1.10.4.1 GenericHSP.pm, 1.68.4.4, 1.68.4.5 HMMERHSP.pm, 1.8, 1.8.4.1 HSPFactory.pm, 1.8, 1.8.4.1 HSPI.pm, 1.36.4.1, 1.36.4.2 HmmpfamHSP.pm, 1.1.2.1, 1.1.2.2 PSLHSP.pm, 1.4, 1.4.4.1 PsiBlastHSP.pm, 1.7, 1.7.4.1 PullHSPI.pm, 1.1.2.1, 1.1.2.2 WABAHSP.pm, 1.9, 1.9.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Search/Hit BlastHit.pm, 1.17, 1.17.4.1 Fasta.pm, 1.10, 1.10.4.1 GenericHit.pm, 1.37.4.1, 1.37.4.2 HMMERHit.pm, 1.6, 1.6.4.1 HitFactory.pm, 1.6, 1.6.4.1 HitI.pm, 1.24, 1.24.4.1 HmmpfamHit.pm, 1.1.2.1, 1.1.2.2 PsiBlastHit.pm, 1.6, 1.6.4.1 PullHitI.pm, 1.1.2.1, 1.1.2.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Search/Result BlastResult.pm, 1.22.4.2, 1.22.4.3 GenericResult.pm, 1.23.2.4, 1.23.2.5 HMMERResult.pm, 1.6, 1.6.4.1 HmmpfamResult.pm, 1.1.2.3, 1.1.2.4 PullResultI.pm, 1.1.2.1, 1.1.2.2 ResultFactory.pm, 1.6, 1.6.4.1 ResultI.pm, 1.23, 1.23.4.1 WABAResult.pm, 1.5, 1.5.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SearchIO EventHandlerI.pm, 1.13, 1.13.4.1 FastHitEventBuilder.pm, 1.13, 1.13.4.1 IteratedSearchResultEventBuilder.pm, 1.10.4.1, 1.10.4.2 SearchResultEventBuilder.pm, 1.41.4.1, 1.41.4.2 SearchWriterI.pm, 1.10, 1.10.4.1 axt.pm, 1.8.4.1, 1.8.4.2 blast.pm, 1.99.4.2, 1.99.4.3 blasttable.pm, 1.7, 1.7.4.1 blastxml.pm, 1.36.4.2, 1.36.4.3 exonerate.pm, 1.17, 1.17.4.1 fasta.pm, 1.50, 1.50.4.1 hmmer.pm, 1.34, 1.34.4.1 hmmer_pull.pm, 1.1.2.3, 1.1.2.4 megablast.pm, 1.7, 1.7.4.1 psl.pm, 1.13, 1.13.4.1 sim4.pm, 1.13, 1.13.4.1 waba.pm, 1.16, 1.16.4.1 wise.pm, 1.6, 1.6.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SearchIO/Writer BSMLResultWriter.pm, 1.4, 1.4.4.1 GbrowseGFF.pm, 1.15, 1.15.4.1 HSPTableWriter.pm, 1.17, 1.17.4.1 HTMLResultWriter.pm, 1.38, 1.38.4.1 HitTableWriter.pm, 1.20, 1.20.4.1 ResultTableWriter.pm, 1.19, 1.19.4.1 TextResultWriter.pm, 1.18, 1.18.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Seq BaseSeqProcessor.pm, 1.7, 1.7.4.1 EncodedSeq.pm, 1.11, 1.11.4.1 LargeLocatableSeq.pm, 1.5, 1.5.4.1 LargePrimarySeq.pm, 1.32, 1.32.4.1 LargeSeq.pm, 1.15, 1.15.4.1 LargeSeqI.pm, 1.6, 1.6.4.1 Meta.pm, 1.12, 1.12.4.1 MetaI.pm, 1.10, 1.10.4.1 PrimaryQual.pm, 1.24, 1.24.4.1 PrimedSeq.pm, 1.23, 1.23.4.1 QualI.pm, 1.11, 1.11.4.1 Quality.pm, 1.10, 1.10.4.1 RichSeq.pm, 1.19, 1.19.4.1 RichSeqI.pm, 1.14, 1.14.4.1 SeqBuilder.pm, 1.9, 1.9.4.1 SeqFactory.pm, 1.11, 1.11.4.1 SeqFastaSpeedFactory.pm, 1.7, 1.7.4.1 SeqWithQuality.pm, 1.27, 1.27.4.1 SequenceTrace.pm, 1.14, 1.14.4.1 TraceI.pm, 1.9, 1.9.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Seq/Meta Array.pm,1.13,1.13.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SeqFeature Annotated.pm, 1.34, 1.34.4.1 AnnotationAdaptor.pm, 1.10, 1.10.4.1 Collection.pm, 1.18, 1.18.4.1 CollectionI.pm, 1.5, 1.5.4.1 Computation.pm, 1.16, 1.16.4.1 FeaturePair.pm, 1.22, 1.22.4.1 Generic.pm, 1.103, 1.103.4.1 PositionProxy.pm, 1.9, 1.9.4.1 Primer.pm, 1.21, 1.21.4.1 Similarity.pm, 1.16, 1.16.4.1 SimilarityPair.pm, 1.30, 1.30.4.1 TypedSeqFeatureI.pm, 1.7, 1.7.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SeqFeature/Tools FeatureNamer.pm, 1.6, 1.6.4.1 IDHandler.pm, 1.10, 1.10.4.1 TypeMapper.pm, 1.14, 1.14.4.1 Unflattener.pm, 1.37.4.1, 1.37.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SeqFeature/SiRNA Oligo.pm, 1.6, 1.6.4.1 Pair.pm, 1.6, 1.6.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SeqFeature/Gene Exon.pm, 1.15, 1.15.4.1 ExonI.pm, 1.11, 1.11.4.1 GeneStructure.pm, 1.21, 1.21.4.1 GeneStructureI.pm, 1.12, 1.12.4.1 Intron.pm, 1.10, 1.10.4.1 NC_Feature.pm, 1.11, 1.11.4.1 Poly_A_site.pm, 1.7, 1.7.4.1 Promoter.pm, 1.8, 1.8.4.1 Transcript.pm, 1.38, 1.38.4.1 TranscriptI.pm, 1.13, 1.13.4.1 UTR.pm, 1.10, 1.10.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO/game featHandler.pm, 1.15, 1.15.4.1 gameHandler.pm, 1.8, 1.8.4.1 gameSubs.pm, 1.9, 1.9.4.1 gameWriter.pm, 1.13, 1.13.4.1 seqHandler.pm, 1.27, 1.27.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO FTHelper.pm, 1.61, 1.61.4.1 MultiFile.pm, 1.12, 1.12.4.1 abi.pm, 1.14, 1.14.4.1 ace.pm, 1.17, 1.17.4.1 agave.pm, 1.15, 1.15.4.1 alf.pm, 1.12, 1.12.4.1 asciitree.pm, 1.4, 1.4.4.1 bsml.pm, 1.24, 1.24.4.1 bsml_sax.pm, 1.4, 1.4.4.1 chadoxml.pm, 1.19, 1.19.4.1 chaos.pm, 1.10, 1.10.4.1 chaosxml.pm, 1.3, 1.3.6.1 ctf.pm, 1.15, 1.15.4.1 embl.pm, 1.92.4.2, 1.92.4.3 entrezgene.pm, 1.22.4.1, 1.22.4.2 excel.pm, 1.4, 1.4.4.1 exp.pm, 1.15, 1.15.4.1 fasta.pm, 1.58, 1.58.4.1 fastq.pm, 1.15, 1.15.4.1 game.pm, 1.38, 1.38.4.1 gcg.pm, 1.26, 1.26.4.1 genbank.pm, 1.140.2.2, 1.140.2.3 interpro.pm, 1.9, 1.9.4.1 kegg.pm, 1.18, 1.18.4.1 largefasta.pm, 1.24, 1.24.4.1 lasergene.pm, 1.5, 1.5.4.1 locuslink.pm, 1.12, 1.12.4.1 metafasta.pm, 1.9, 1.9.4.1 phd.pm, 1.21, 1.21.4.1 pir.pm, 1.23, 1.23.4.1 pln.pm, 1.12, 1.12.4.1 qual.pm, 1.30, 1.30.4.1 raw.pm, 1.21, 1.21.4.1 scf.pm, 1.36, 1.36.4.1 strider.pm, 1.6.4.1, 1.6.4.2 swiss.pm, 1.92.4.1, 1.92.4.2 tab.pm, 1.6, 1.6.4.1 table.pm, 1.4, 1.4.4.1 tigr.pm, 1.12, 1.12.4.1 tigrxml.pm, 1.8, 1.8.4.1 tinyseq.pm, 1.7, 1! .7.4.1 ztr.pm, 1.14, 1.14.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO/tinyseq tinyseqHandler.pm, 1.5, 1.5.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Symbol Alphabet.pm, 1.10, 1.10.4.1 AlphabetI.pm, 1.8, 1.8.4.1 DNAAlphabet.pm, 1.6, 1.6.4.1 ProteinAlphabet.pm, 1.7, 1.7.2.1 Symbol.pm, 1.9, 1.9.4.1 SymbolI.pm, 1.9, 1.9.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Structure Atom.pm, 1.12, 1.12.4.1 Chain.pm, 1.11, 1.11.4.1 Entry.pm, 1.27, 1.27.4.1 IO.pm, 1.12, 1.12.4.1 Model.pm, 1.10, 1.10.4.1 Residue.pm, 1.11, 1.11.4.1 StructureI.pm, 1.7, 1.7.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Structure/IO pdb.pm, 1.17, 1.17.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Structure/SecStr/STRIDE Res.pm, 1.9, 1.9.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Structure/SecStr/DSSP Res.pm, 1.10.4.2, 1.10.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Taxonomy FactoryI.pm, 1.4, 1.4.4.1 Node.pm, 1.17, 1.17.4.1 Taxon.pm, 1.5, 1.5.4.1 Tree.pm, 1.3, 1.3.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Analysis SimpleAnalysisBase.pm, 1.12, 1.12.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Analysis/DNA ESEfinder.pm, 1.12.4.1, 1.12.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Alignment Consed.pm, 1.41, 1.41.4.1 Trim.pm, 1.21, 1.21.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools AlignFactory.pm, 1.8, 1.8.14.1 AnalysisResult.pm, 1.17, 1.17.4.1 BPbl2seq.pm, 1.29, 1.29.4.1 BPlite.pm, 1.42, 1.42.4.1 BPpsilite.pm, 1.26, 1.26.4.1 Blat.pm, 1.7, 1.7.4.1 CodonTable.pm, 1.37, 1.37.2.1 Coil.pm, 1.6, 1.6.4.1 ECnumber.pm, 1.11, 1.11.4.1 EPCR.pm, 1.18, 1.18.4.1 ERPIN.pm, 1.5, 1.5.4.1 ESTScan.pm, 1.14, 1.14.4.1 Eponine.pm, 1.13, 1.13.4.1 Est2Genome.pm, 1.17, 1.17.4.1 Fgenesh.pm, 1.10.4.1, 1.10.4.2 FootPrinter.pm, 1.8, 1.8.4.1 GFF.pm, 1.58, 1.58.4.1 Gel.pm, 1.11, 1.11.4.1 Geneid.pm, 1.5, 1.5.4.1 Genemark.pm, 1.17, 1.17.4.1 Genewise.pm, 1.25, 1.25.4.1 Genomewise.pm, 1.6, 1.6.4.1 Genscan.pm, 1.29, 1.29.4.1 Glimmer.pm, 1.4, 1.4.4.1 Grail.pm, 1.11, 1.11.4.1 GuessSeqFormat.pm, 1.15, 1.15.4.1 HMM.pm, 1.8, 1.8.4.1 Hmmpfam.pm, 1.8, 1.8.4.1 IUPAC.pm, 1.29, 1.29.2.1 Lucy.pm, 1.15, 1.15.4.1 MZEF.pm, 1.14, 1.14.4.1 OddCodes.pm, 1.19, 1.19.4.1 Primer3.pm, 1.20, 1.20.4.1 Prints.pm, 1.13, 1.13.4.1 Profile.pm, 1.8, 1.8.4.1 Promoterwise.pm, 1.8, 1.8.4.1 PrositeScan.pm, 1.2, 1.2.8.1 Pseudowise.pm, 1.10, 1.10.4.1 QRNA.pm, 1.5, 1! .5.4.1 RNAMotif.pm, 1.10.4.3, 1.10.4.4 RandomDistFunctions.pm, 1.7, 1.7.4.1 RepeatMasker.pm, 1.10, 1.10.4.1 RestrictionEnzyme.pm, 1.35, 1.35.4.1 Seg.pm, 1.10, 1.10.4.1 SeqPattern.pm, 1.21, 1.21.4.1 SeqStats.pm, 1.30, 1.30.4.1 SeqWords.pm, 1.17, 1.17.4.1 SiRNA.pm, 1.13, 1.13.4.1 Sigcleave.pm, 1.22, 1.22.4.1 Signalp.pm, 1.8, 1.8.4.1 Tmhmm.pm, 1.10, 1.10.4.1 dpAlign.pm, 1.18, 1.18.4.1 ipcress.pm, 1.8, 1.8.4.1 isPcr.pm, 1.9, 1.9.4.1 pICalculator.pm, 1.9, 1.9.4.1 pSW.pm, 1.27, 1.27.4.1 tRNAscanSE.pm, 1.5, 1.5.2.1 Blast.pm, 1.37, NONE SeqAnal.pm, 1.18, NONE WWW.pm, 1.16, NONE   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Blast CHANGES, 1.7, NONE HSP.pm, 1.23, NONE HTML.pm, 1.19, NONE README, 1.7, NONE Sbjct.pm, 1.25, NONE   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Analysis/Protein Domcut.pm, 1.14, 1.14.4.1 ELM.pm, 1.12, 1.12.4.1 GOR4.pm, 1.12, 1.12.4.1 HNN.pm, 1.12, 1.12.4.1 Mitoprot.pm, 1.8, 1.8.4.1 NetPhos.pm, 1.13, 1.13.4.1 Scansite.pm, 1.16, 1.16.4.1 Sopma.pm, 1.13, 1.13.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Phylo Molphy.pm, 1.9, 1.9.4.1 PAML.pm, 1.49, 1.49.2.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/EMBOSS Palindrome.pm, 1.4, 1.4.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/BPlite HSP.pm, 1.31, 1.31.4.1 Iteration.pm, 1.18, 1.18.4.1 Sbjct.pm, 1.33, 1.33.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/HMMER Domain.pm, 1.12, 1.12.8.1 Results.pm, 1.28, 1.28.4.1 Set.pm, 1.15, 1.15.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Phylo/PAML ModelResult.pm, 1.7, 1.7.4.1 Result.pm, 1.22, 1.22.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Phylo/Molphy Result.pm, 1.9, 1.9.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Phylo/Phylip ProtDist.pm, 1.9, 1.9.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Primer AssessorI.pm, 1.5, 1.5.4.1 Feature.pm, 1.5, 1.5.4.1 Pair.pm, 1.4, 1.4.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Prediction Exon.pm, 1.16, 1.16.4.1 Gene.pm, 1.15, 1.15.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Primer/Assessor Base.pm, 1.4, 1.4.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tree AlleleNode.pm, 1.13, 1.13.4.1 Compatible.pm, 1.5.4.2, 1.5.4.3 DistanceFactory.pm, 1.8, 1.8.4.1 Node.pm, 1.49.4.1, 1.49.4.2 NodeI.pm, 1.35, 1.35.4.1 NodeNHX.pm, 1.10, 1.10.4.1 RandomFactory.pm, 1.18, 1.18.4.1 Statistics.pm, 1.12, 1.12.4.1 Tree.pm, 1.21, 1.21.4.1 TreeFunctionsI.pm, 1.28, 1.28.2.1 TreeI.pm, 1.17, 1.17.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Spidey Exon.pm, 1.6, 1.6.4.1 Results.pm, 1.10, 1.10.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Sim4 Exon.pm, 1.16, 1.16.4.1 Results.pm, 1.25, 1.25.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/SiRNA/Ruleset saigo.pm, 1.4, 1.4.4.1 tuschl.pm, 1.4, 1.4.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tree/Draw Cladogram.pm, 1.12.4.1, 1.12.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Run GenericParameters.pm, 1.6, 1.6.2.1 ParametersI.pm, 1.5, 1.5.4.1 RemoteBlast.pm, 1.38, 1.38.4.1 StandAloneBlast.pm, 1.63, 1.63.4.1 WrapperBase.pm, 1.21, 1.21.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Variation/IO flat.pm, 1.19, 1.19.4.1 xml.pm, 1.19, 1.19.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Variation AAChange.pm, 1.20, 1.20.4.1 AAReverseMutate.pm, 1.12, 1.12.4.1 Allele.pm, 1.15, 1.15.4.1 DNAMutation.pm, 1.18, 1.18.4.1 IO.pm, 1.22, 1.22.4.1 RNAChange.pm, 1.17, 1.17.4.1 SNP.pm, 1.16, 1.16.4.1 SeqDiff.pm, 1.23, 1.23.4.1 VariantI.pm, 1.20, 1.20.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/examples/root/lib/Bio PrimarySeq.pm, 1.6, 1.6.4.1 PrimarySeqI.pm, 1.6, 1.6.4.1 Seq.pm, 1.6, 1.6.4.1 SeqI.pm, 1.5, 1.5.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/examples/tools run_primer3.pl, 1.3, 1.3.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/examples/root/lib TestInterface.pm, 1.1, 1.1.8.1 TestObject.pm, 1.1, 1.1.8.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/TreeIO TreeEventBuilder.pm, 1.23, 1.23.4.1 cluster.pm, 1.4, 1.4.4.1 lintree.pm, 1.8, 1.8.4.1 newick.pm, 1.36.4.1, 1.36.4.2 nexus.pm, 1.13, 1.13.4.1 nhx.pm, 1.18, 1.18.4.1 pag.pm, 1.9, 1.9.4.1 svggraph.pm, 1.5, 1.5.4.1 tabtree.pm, 1.10, 1.10.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/scripts/utilities mutate.PLS, 1.11, 1.11.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/scripts/taxa local_taxonomydb_query.PLS, 1.2, 1.2.6.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/scripts/Bio-DB-GFF process_sgd.PLS, 1.2, 1.2.8.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/maintenance check_NAME.pl, NONE, 1.2.2.1 README, 1.1, 1.1.8.1 symlink_scripts.PLS, 1.9, 1.9.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t Seg.t, NONE, 1.1.2.1 Signalp.t, NONE, 1.1.2.1 Tmhmm.t, NONE, 1.1.2.1 Assembly.t, 1.7, 1.7.2.1 Biblio_biofetch.t, 1.11.6.1, 1.11.6.2 BioDBSeqFeature.t, 1.1.2.2, 1.1.2.3 DB.t, 1.67.2.2, 1.67.2.3 DBCUTG.t, 1.20.4.1, 1.20.4.2 ESEfinder.t, 1.13.6.1, 1.13.6.2 EUtilities.t, 1.10.2.1, 1.10.2.2 FeatureIO.t, 1.6, 1.6.4.1 Genpred.t, 1.15, 1.15.8.1 Index.t, 1.44.2.2, 1.44.2.3 Location.t, 1.29.4.1, 1.29.4.2 LocationFactory.t, 1.12.4.1, 1.12.4.2 MapIO.t, 1.4.4.2, 1.4.4.3 Mutator.t, 1.9.14.2, 1.9.14.3 NetPhos.t, 1.8.4.2, 1.8.4.3 OntologyStore.t, 1.1, 1.1.6.1 PhysicalMap.t, 1.2.4.2, 1.2.4.3 RootIO.t, 1.7, 1.7.6.1 SearchIO.t, 1.96.4.1, 1.96.4.2 SeqFeature.t, 1.41.4.2, 1.41.4.3 SeqHound_DB.t, 1.4, 1.4.4.1 SimpleAlign.t, 1.43, 1.43.2.1 SiteMatrix.t, 1.4.6.2, 1.4.6.3 Species.t, 1.11.4.1, 1.11.4.2 StructIO.t, 1.8.4.1, 1.8.4.2 Taxonomy.t, 1.11.4.1, 1.11.4.2 Test.pm, 1.2, 1.2.14.1 TreeIO.t, 1.32.6.1, 1.32.6.2 Unflattener.t, 1.8.4.1, 1.8.4.2 XEMBL_DB.t, 1.5, 1.5.6.1 genbank.t, 1.11.2.2, 1.11.2.3 obo_parser.t, 1.1, 1.1.4.1 rnamotif.t, 1.2, 1.2.4.! 1 swiss.t, 1.3.4.1, 1.3.4.2 Root-Utilities.t, 1.1, NONE tutorial.t, 1.2, NONE   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t/data Glimmer2.out, NONE, 1.1.2.1 Glimmer3.detail, NONE, 1.1.2.1 Glimmer3.predict, NONE, 1.1.2.1 GlimmerHMM.out, NONE, 1.1.2.1 GlimmerM.out, NONE, 1.1.2.1 prints.out, NONE, 1.1.2.1 seg.out, NONE, 1.1.2.1 signalp.negative.out, NONE, 1.1.2.1 signalp.positive.out, NONE, 1.1.2.1 test.ptt, NONE, 1.1.2.1 testfile.erpin, NONE, 1.1.2.1 tmhmm.out, NONE, 1.1.2.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t/lib/Test/Builder Module.pm, 1.1.2.1, 1.1.2.2 Tester.pm, 1.1.2.1, 1.1.2.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t/lib/Test Simple.pm, 1.1.2.1, 1.1.2.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t/data/seqfeaturedb test.gff3, 1.1.2.2, 1.1.2.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-network/Bio/Network/IO psi.pm,1.12,1.13   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t BPbl2seq.t, 1.22, NONE BPlite.t, 1.22, NONE BPpsilite.t, 1.11, NONE RestrictionEnzyme.t, 1.7, NONE   Christopher John Fields
• [Bioperl-guts-l] bioperl-run AUTHORS,1.6,1.7   Brian Osborne
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqVersion gi.pm,1.5,1.6   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/DB SeqVersion.pm,1.9,1.10   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/DB SeqVersion.pm,1.10,1.11   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqVersion gi.pm,1.6,1.7   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/DB SeqVersion.pm,1.11,1.12   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/doc/Deobfuscator/lib Deobfuscator.pm, 1.3, 1.4   Dave Messina
• [Bioperl-guts-l] bioperl-live/doc/Deobfuscator/cgi-bin deob_detail.cgi, 1.3, 1.4 deob_help.html, 1.2, 1.3 deob_interface.cgi, 1.3, 1.4   Dave Messina
• [Bioperl-guts-l] bioperl-live/doc/Deobfuscator/bin deob_index.pl, 1.3, 1.4   Dave Messina
• [Bioperl-guts-l] bioperl-live/doc/Deobfuscator excluded_modules.txt, NONE, 1.1 Changes, 1.1, 1.2 MANIFEST, 1.1, 1.2 META.yml, 1.1, 1.2 README, 1.1, 1.2   Dave Messina
• [Bioperl-guts-l] bioperl-live/Bio/DB/Expression geo.pm,1.4,1.5   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tools Genomewise.pm, 1.8, 1.9 Genewise.pm, 1.26, 1.27 Geneid.pm, 1.6, 1.7   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Index Abstract.pm,1.52,1.53   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/SearchIO blast.pm, 1.107, 1.108 hmmer.pm, 1.36, 1.37   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqVersion gi.pm,1.7,1.8   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Index Abstract.pm,1.53,1.54   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/DB SeqVersion.pm,1.12,1.13   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqVersion gi.pm,1.8,1.9   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/t SeqVersion.t,1.1,1.2   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tools BPlite.pm,1.45,1.46   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Index Abstract.pm,1.54,1.55   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/t ESEfinder.t,1.15,1.16   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/t ESEfinder.t,1.16,1.17   Torsten Seemann
• [Bioperl-guts-l] [Bug 2118] New: Bio/DB/SeqFeature/Segment.pm mixing symbolic and numeric strand()   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2118] Bio/DB/SeqFeature/Segment.pm mixing symbolic and numeric strand()   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/Bio/Root Root.pm,1.40,1.41   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/t ESEfinder.t,1.13.6.2,1.13.6.3   Jason Stajich
• [Bioperl-guts-l] bioperl-live/t DBCUTG.t,1.23,1.24   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t ESEfinder.t,1.17,1.18   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t ESEfinder.t, 1.13.6.3, 1.13.6.4 DBCUTG.t, 1.20.4.2, 1.20.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run/Alignment Muscle.pm, 1.9, 1.10   Albert Vilella
• [Bioperl-guts-l] bioperl-db/Bio/DB/BioSQL OBDA.pm,1.2,1.3   Brian Osborne
• [Bioperl-guts-l] bioperl-live/Bio/DB/EUtilities esummary.pm, 1.12, 1.13   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/EUtilities esearch.pm, 1.17, 1.18   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature NormalizedFeature.pm, 1.20, 1.21   Lincoln Stein
• [Bioperl-guts-l] [Bug 1707] Out of memory crash from Bio::DB::GFF::Adaptor::dbi::pg.pm (Postgres)   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2060] load_ucsc.pl fails on UCSC's hg17 "refFlat.txt.gz" file   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/Bio/DB EUtilities.pm,1.33,1.34   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/DB BioFetch.pm,1.30,1.31   Malcom Cook
• [Bioperl-guts-l] bioperl-live/Bio/Tools Fgenesh.pm,1.15,1.16   Malcom Cook
• [Bioperl-guts-l] bioperl-live/doc/Deobfuscator README,1.2,1.3   Mauricio Herrera Cuadra
• [Bioperl-guts-l] bioperl-live/Bio/DB/EUtilities DocSum.pm, NONE, 1.1 esummary.pm, 1.13, 1.14   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/DB/EUtilities DocSum.pm, 1.1, 1.2 esummary.pm, 1.14, 1.15   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/DB/EUtilities DocSum.pm,1.2,1.3   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/t EUtilities.t,1.12,1.13   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/PopGen Marker.pm,1.8,1.9   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio Taxon.pm,1.4,1.5   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/SearchIO megablast.pm,1.9,1.10   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Phylo/Molphy Result.pm, 1.11, 1.12   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/TreeIO cluster.pm,1.6,1.7   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Phylo/PAML Result.pm, 1.24, 1.25 ModelResult.pm, 1.10, 1.11   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/t Taxonomy.t,1.13,1.14   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/doc/Deobfuscator/bin deob_index.pl, 1.4, 1.5   Dave Messina
• [Bioperl-guts-l] bioperl-live/Bio/DB/EUtilities DocSum.pm, 1.3, 1.4 esummary.pm, 1.15, 1.16   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/t EUtilities.t,1.13,1.14   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/Tools BPpsilite.pm,1.31,1.32   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/DB/Flat BinarySearch.pm, 1.27, 1.28   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/SeqFeature Collection.pm, 1.19, 1.20   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Cluster SequenceFamily.pm, 1.11, 1.12   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Factory DriverFactory.pm, 1.16, 1.17   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Alignment Consed.pm, 1.46, 1.47   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/DB Flat.pm,1.26,1.27   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Phylo PAML.pm,1.50,1.51   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Root Storable.pm,1.9,1.10   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Run StandAloneBlast.pm, 1.66, 1.67 WrapperBase.pm, 1.23, 1.24   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature NormalizedFeature.pm, 1.13.4.3, 1.13.4.4   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Graphics FeatureBase.pm, 1.16, 1.17   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature Store.pm, 1.24, 1.25   Malcom Cook
• [Bioperl-guts-l] bioperl-live/Bio/DB/EUtilities DocSum.pm, 1.4, 1.5 esearch.pm, 1.18, 1.19 esummary.pm, 1.16, 1.17   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/t EUtilities.t,1.14,1.15   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/DB/EUtilities esearch.pm, 1.19, 1.20   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/DB EUtilities.pm,1.34,1.35   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/DB/EUtilities QueryData.pm, NONE, 1.1 DocSum.pm, 1.5, 1.6 ElinkData.pm, 1.20, 1.21 egquery.pm, 1.10, 1.11 esearch.pm, 1.20, 1.21   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/t Taxonomy.t,1.11.4.2,1.11.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t BPlite.t, 1.22, NONE BPpsilite.t, 1.11, NONE BPbl2seq.t, 1.22, NONE RestrictionEnzyme.t, 1.7, NONE   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqVersion gi.pm, 1.4.4.1, 1.4.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB SeqVersion.pm, 1.5.4.1, 1.5.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t SeqVersion.t,1.1,1.1.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] [Bug 2060] load_ucsc.pl fails on UCSC's hg17 "refFlat.txt.gz" file   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2060] load_ucsc.pl fails on UCSC's hg17 "refFlat.txt.gz" file   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature Store.pm, 1.25, 1.26   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/t RootStorable.t,1.3,1.4   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/t RootIO.t, 1.9, 1.10 Tempfile.t, 1.3, 1.4   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/doc/Deobfuscator/bin deob_index.pl, 1.5, 1.6   Dave Messina
• [Bioperl-guts-l] bioperl-live/doc/Deobfuscator/cgi-bin deob_interface.cgi, 1.4, 1.5   Dave Messina
• [Bioperl-guts-l] bioperl-live/doc/Deobfuscator Changes,1.2,1.3   Dave Messina
• [Bioperl-guts-l] bioperl-live/Bio/Align AlignI.pm,1.17,1.18   Albert Vilella
• [Bioperl-guts-l] [Bug 2119] New: Incomplete tempfile removal using RemoteBlast   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2119] Incomplete tempfile removal using RemoteBlast   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2119] Incomplete tempfile removal using RemoteBlast   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2119] Incomplete tempfile removal using RemoteBlast   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2119] Incomplete tempfile removal using RemoteBlast   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/doc/Deobfuscator/bin deob_index.pl, 1.6, 1.7   Mauricio Herrera Cuadra
• [Bioperl-guts-l] bioperl-run AUTHORS,1.7,1.8   Mauricio Herrera Cuadra
• [Bioperl-guts-l] bioperl-live/Bio/Graphics/Glyph segments.pm, 1.52, 1.53   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature Store.pm, 1.21.4.3, 1.21.4.4   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/Graphics/Glyph segments.pm, 1.44.2.2, 1.44.2.3   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/t SeqVersion.t,1.2,1.3   Torsten Seemann
• [Bioperl-guts-l] [Bug 2120] New: Bio::SeqIO (-format => phd) does not read trace indices   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2120] Bio::SeqIO (-format => phd) does not read trace indices   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2120] Bio::SeqIO (-format => phd) does not read trace indices   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2120] Bio::SeqIO (-format => phd) does not read trace indices   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2120] Bio::SeqIO (-format => phd) does not read trace indices   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/Bio WebAgent.pm,1.15,1.16   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio WebAgent.pm,1.16,1.17   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/Taxonomy entrez.pm,1.20,1.21   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio WebAgent.pm,1.12.4.1,1.12.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/Taxonomy entrez.pm, 1.18.4.1, 1.18.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t SeqVersion.t,1.1.4.1,1.1.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/t Analysis_soap.t,1.3,1.4   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO interpro.pm,1.11,1.12   Brian Osborne
• [Bioperl-guts-l] bioperl-live/Bio/FeatureIO gff.pm,1.47,1.48   Scott Cain
• [Bioperl-guts-l] bioperl-live/Bio FeatureIO.pm,1.20,1.21   Jason Stajich
• [Bioperl-guts-l] bioperl-live/Bio FeatureIO.pm,1.15.4.2,1.15.4.3   Jason Stajich
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature/Store berkeleydb.pm, 1.11, 1.12   Jason Stajich
• [Bioperl-guts-l] bioperl-live/Bio/Tools BPpsilite.pm,1.32,1.33   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio SimpleAlign.pm,1.114,1.115   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO swiss.pm, 1.99, 1.100 genbank.pm, 1.152, 1.153   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Tools/BPlite Iteration.pm, 1.20, 1.21   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO interpro.pm,1.12,1.13   Torsten Seemann
• [Bioperl-guts-l] bioperl-live/Bio/Graphics/Glyph segments.pm, 1.53, 1.54   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/Graphics Glyph.pm,1.125,1.126   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/Graphics/Glyph segments.pm, 1.44.2.3, 1.44.2.4   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/Graphics Glyph.pm, 1.113.4.3, 1.113.4.4   Lincoln Stein
• [Bioperl-guts-l] [Bug 2104] Bio::DB::WebDBSeqI does not work under mod_perl   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2113] XEMBL-related URLs in Bio::DB::XEMBL and Bio::DB::XEMBLServices no longer work   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 1392] Make install of cvs main trunk of bioperl-ext doesn't install read.so   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/t phd.t,1.8,1.9   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO phd.pm,1.23,1.24   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/t/data bug2120.phd,NONE,1.1   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/t phd.t,1.9,1.10   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO phd.pm,1.21.4.1,1.21.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t phd.t,1.8,1.8.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] [Bug 2113] XEMBL-related URLs in Bio::DB::XEMBL and Bio::DB::XEMBLServices no longer work   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2113] XEMBL-related URLs in Bio::DB::XEMBL and Bio::DB::XEMBLServices no longer work   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/Bio/Search/Result GenericResult.pm, 1.26, 1.27   Brian Osborne
• [Bioperl-guts-l] bioperl-live/t BioDBGFF.t, 1.41, 1.42 BioGraphics.t, 1.17, 1.18 OMIMparser.t, 1.5, 1.6 Perl.t, 1.8, 1.9 Registry.t, 1.10, 1.11 RestrictionIO.t, 1.9, 1.10 SearchIO.t, 1.97, 1.98 TreeIO.t, 1.33, 1.34 asciitree.t, 1.1, 1.2 chaosxml.t, 1.3, 1.4 cigarstring.t, 1.2, 1.3 primedseq.t, 1.4, 1.5 primer3.t, 1.11, 1.12 singlet.t, 1.5, 1.6 sirna.t, 1.4, 1.5 tinyseq.t, 1.3, 1.4   Torsten Seemann
• [Bioperl-guts-l] [Bug 2121] New: BLAST parsing routine does not correctly handle reports w/o alignments   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2121] BLAST parsing routine does not correctly handle reports w/o alignments   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2121] BLAST parsing routine does not correctly handle reports w/o alignments   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2121] BLAST parsing routine does not correctly handle reports w/o alignments   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2121] BLAST parsing routine does not correctly handle reports w/o alignments   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2121] BLAST parsing routine does not correctly handle reports w/o alignments   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2113] XEMBL-related URLs in Bio::DB::XEMBL and Bio::DB::XEMBLServices no longer work   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/Bio/SearchIO blast.pm,1.108,1.109   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/SearchIO blast.pm, 1.99.4.3, 1.99.4.4   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Search/Result GenericResult.pm, 1.23.2.5, 1.23.2.6   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Graphics FeatureFile.pm, 1.79, 1.80   Sheldon Mckay
• [Bioperl-guts-l] bioperl-network README,1.2,1.3   Brian Osborne
• [Bioperl-guts-l] bioperl-run/t Analysis_soap.t,1.4,1.5   Christopher John Fields
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run/Phylo/PAML Codeml.pm, 1.43, 1.44   Albert Vilella
• [Bioperl-guts-l] bioperl-live/Bio/Tools GuessSeqFormat.pm, 1.18, 1.19   Albert Vilella
• [Bioperl-guts-l] bioperl-live/t RootStorable.t,1.4,1.5   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB SeqHound.pm,1.7,1.8   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Run RemoteBlast.pm, 1.41, 1.42   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t RemoteBlast.t,1.15,1.16   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SeqFeature Annotated.pm, 1.35, 1.36   Scott Cain
• [Bioperl-guts-l] bioperl-live/t RootStorable.t, 1.3, 1.3.6.1 RemoteBlast.t, 1.15, 1.15.6.1 BioDBGFF.t, 1.41, 1.41.4.1 BioGraphics.t, 1.17, 1.17.4.1 OMIMparser.t, 1.5, 1.5.8.1 Perl.t, 1.8, 1.8.6.1 Registry.t, 1.10, 1.10.6.1 RestrictionIO.t, 1.9, 1.9.4.1 SearchIO.t, 1.96.4.2, 1.96.4.3 TreeIO.t, 1.32.6.2, 1.32.6.3 asciitree.t, 1.1, 1.1.6.1 chaosxml.t, 1.3, 1.3.4.1 cigarstring.t, 1.2, 1.2.6.1 primedseq.t, 1.4, 1.4.8.1 primer3.t, 1.11, 1.11.4.1 singlet.t, 1.5, 1.5.6.1 sirna.t, 1.4, 1.4.6.1 tinyseq.t, 1.3, 1.3.6.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB SeqHound.pm,1.4.4.1,1.4.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Graphics FeatureFile.pm, 1.78.4.3, 1.78.4.4   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SeqFeature Annotated.pm, 1.34.4.1, 1.34.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/FeatureIO gff.pm, 1.43.4.2, 1.43.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature/Store berkeleydb.pm, 1.5.4.3, 1.5.4.4   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO interpro.pm, 1.9.4.1, 1.9.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Run RemoteBlast.pm, 1.38.4.1, 1.38.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Search/Result GenericResult.pm, 1.23.2.6, 1.23.2.7   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Index Blast.pm,1.24,1.25   Brian Osborne
• [Bioperl-guts-l] [Bug 2122] New: AnalysisFactory_soap.t failures   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2122] AnalysisFactory_soap.t failures   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2101] Bio::Location mishandling of join(complement(..), complement(..))   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2101] Bio::Location mishandling of join(complement(..), complement(..))   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2101] Bio::Location mishandling of join(complement(..), complement(..))   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2101] Bio::Location mishandling of join(complement(..), complement(..))   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/Bio/Index Blast.pm,1.25,1.26   Brian Osborne
• [Bioperl-guts-l] [Bug 2123] New: Add id_parser() method to Bio::Index::Blast   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Run WrapperBase.pm, 1.24, 1.25   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Run WrapperBase.pm, 1.21.4.1, 1.21.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/SeqFeature Annotated.pm, 1.34.4.2, 1.34.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Index Blast.pm, 1.21.4.1, 1.21.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Map MapI.pm, 1.19, 1.20 Mappable.pm, 1.10, 1.11 Position.pm, 1.21, 1.22 PositionI.pm, 1.21, 1.22   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t Map.t,1.8,1.9   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Map MapI.pm, 1.15.4.2, 1.15.4.3 Mappable.pm, 1.6.4.2, 1.6.4.3 Position.pm, 1.18.4.1, 1.18.4.2 PositionI.pm, 1.17.4.1, 1.17.4.2   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t Map.t,1.8,1.8.4.1   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Map MapI.pm, 1.15.4.3, 1.15.4.4 Mappable.pm, 1.6.4.3, 1.6.4.4 Position.pm, 1.18.4.2, 1.18.4.3 PositionI.pm, 1.17.4.2, 1.17.4.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/scripts/Bio-DB-GFF fast_load_gff.PLS, 1.30, 1.31   Scott Cain
• [Bioperl-guts-l] [Bug 2124] New: annotation-dblink version-number repeat   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2124] annotation-dblink version-number repeat   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2124] annotation-dblink version-number repeat   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2124] annotation-dblink version-number repeat   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/t SearchIO.t,1.98,1.99   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/Index AbstractSeq.pm,1.26,1.27   Brian Osborne
• [Bioperl-guts-l] bioperl-run/Bio/Installer PAML.pm,1.6,1.7   Albert Vilella
• [Bioperl-guts-l] bioperl-run/Bio/Installer TCoffee.pm,1.4,1.5   Albert Vilella
• [Bioperl-guts-l] bioperl-run Makefile.PL,1.11,1.12   Nathan Haigh
• [Bioperl-guts-l] bioperl-run Makefile.PL,1.12,1.13   Nathan Haigh
• [Bioperl-guts-l] bioperl-live/Bio/Graphics FeatureFile.pm, 1.80, 1.81   Sheldon Mckay
• [Bioperl-guts-l] [Bug 2069] Bio::Tools:pSW stop codon bug   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 1877] Bio::PopGen::IO::hapmap.pm write_population method   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-run INSTALL.PROGRAMS,1.4,1.5   Nathan Haigh
• [Bioperl-guts-l] bioperl-network Makefile.PL,1.3,1.4   Nathan Haigh
• [Bioperl-guts-l] bioperl-db Makefile.PL,1.4,1.5   Nathan Haigh
• [Bioperl-guts-l] bioperl-live Makefile.PL,1.102,1.103   Nathan Haigh
• [Bioperl-guts-l] bioperl-network/t Interaction.t,1.2,1.3   Nathan Haigh
• [Bioperl-guts-l] bioperl-network/t Interaction.t,1.3,1.4   Nathan Haigh
• [Bioperl-guts-l] bioperl-run INSTALL.PROGRAMS,1.5,1.6   Nathan Haigh
• [Bioperl-guts-l] bioperl-run/t EMBOSS.t,1.13,1.14   Brian Osborne
• [Bioperl-guts-l] bioperl-db Makefile.PL,1.5,1.6   Nathan Haigh
• [Bioperl-guts-l] bioperl-db Makefile.PL,1.6,1.7   Nathan Haigh
• [Bioperl-guts-l] bioperl-network Makefile.PL,1.4,1.5   Nathan Haigh
• [Bioperl-guts-l] bioperl-db Makefile.PL,1.7,1.8   Nathan Haigh
• [Bioperl-guts-l] bioperl-run Makefile.PL,1.13,1.14   Nathan Haigh
• [Bioperl-guts-l] bioperl-network Makefile.PL,1.5,1.6   Nathan Haigh
• [Bioperl-guts-l] bioperl-run Makefile.PL,1.14,1.15   Nathan Haigh
• [Bioperl-guts-l] bioperl-db Makefile.PL,1.8,1.9   Nathan Haigh
• [Bioperl-guts-l] bioperl-live/Bio/Annotation DBLink.pm,1.20,1.21   Jason Stajich
• [Bioperl-guts-l] bioperl-live/Bio/Annotation DBLink.pm, 1.18.6.1, 1.18.6.2   Jason Stajich
• [Bioperl-guts-l] bioperl-live/t swiss.t,1.4,1.5   Jason Stajich
• [Bioperl-guts-l] bioperl-live/t swiss.t,1.3.4.2,1.3.4.3   Jason Stajich
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO embl.pm,1.108,1.109   Jason Stajich
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO swiss.pm,1.100,1.101   Jason Stajich
• [Bioperl-guts-l] bioperl-live/t genbank.t,1.14,1.15   Jason Stajich
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO genbank.pm,1.153,1.154   Jason Stajich
• [Bioperl-guts-l] bioperl-live/Bio/Tools Signalp.pm, 1.11, 1.12 Tmhmm.pm, 1.11, 1.12   Jason Stajich
• [Bioperl-guts-l] bioperl-live/Bio/Tools Tmhmm.pm, 1.10.4.1, 1.10.4.2 Signalp.pm, 1.8.4.1, 1.8.4.2   Jason Stajich
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO genbank.pm,1.154,1.155   Jason Stajich
• [Bioperl-guts-l] bioperl-live/t LocationFactory.t,1.13,1.14   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/Location Split.pm,1.49,1.50   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO genbank.pm, 1.140.2.3, 1.140.2.4   Jason Stajich
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO embl.pm,1.92.4.3,1.92.4.4   Jason Stajich
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO swiss.pm, 1.92.4.2, 1.92.4.3   Jason Stajich
• [Bioperl-guts-l] [Bug 2101] Bio::Location mishandling of join(complement(..), complement(..))   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-run/t/lib - New directory   Nathan Haigh
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run/Alignment Amap.pm, 1.4, 1.5   Nathan Haigh
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Analysis/DNA ESEfinder.pm, 1.16, 1.17   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live Makefile.PL,1.103,1.104   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live Makefile.PL,1.104,1.105   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live Makefile.PL,1.105,1.106   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t EUtilities.t, 1.15, 1.16 ESEfinder.t, 1.18, 1.19 Taxonomy.t, 1.14, 1.15 Species.t, 1.14, 1.15 LocationFactory.t, 1.14, 1.15 DBCUTG.t, 1.24, 1.25 DB.t, 1.70, 1.71 phd.t, 1.10, 1.11 NetPhos.t, 1.12, 1.13 Tempfile.t, 1.4, 1.5 RootIO.t, 1.10, 1.11 SeqVersion.t, 1.3, 1.4 Location.t, 1.31, 1.32 SearchIO.t, 1.99, 1.100 RootStorable.t, 1.5, 1.6   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live Makefile.PL,1.106,1.107   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t SearchIO.t,1.96.4.3,1.96.4.4   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/Location Split.pm,1.50,1.51   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/Location Split.pm, 1.46.4.1, 1.46.4.2   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/t LocationFactory.t, 1.12.4.2, 1.12.4.3   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/Graphics FeatureFile.pm, 1.81, 1.82   Sheldon Mckay
• [Bioperl-guts-l] [Bug 2125] New: multiple rounds of 'make test' for bioperl-db fail (Mac OS X)   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2125] multiple rounds of 'make test' for bioperl-db fail (Mac OS X)   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2125] multiple rounds of 'make test' for bioperl-db fail (Mac OS X)   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2125] multiple rounds of 'make test' for bioperl-db fail (Mac OS X)   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2125] multiple rounds of 'make test' for bioperl-db fail (Mac OS X)   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-run/Bio/Factory EMBOSS.pm,1.8,1.9   Brian Osborne
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run EMBOSSApplication.pm, 1.25, 1.26   Brian Osborne
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run EMBOSSApplication.pm, 1.26, 1.27   Brian Osborne
• [Bioperl-guts-l] [Bioperl-l] Updated Makefile.PL   Erikjan
• [Bioperl-guts-l] bioperl-live Makefile.PL,1.107,1.108   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/t EMBOSS.t,1.14,1.15   Brian Osborne
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run EMBOSSApplication.pm, 1.27, 1.28   Brian Osborne
• [Bioperl-guts-l] bioperl-live/Bio/DB Registry.pm,1.39,1.40   Brian Osborne
• [Bioperl-guts-l] bioperl-live/t chaosxml.t,1.4,1.5   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live Makefile.PL,1.108,1.109   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live Makefile.PL,1.109,1.110   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Root Root.pm,1.41,1.42   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live Makefile.PL,1.110,1.111   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Index Blast.pm,1.26,1.27   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live Makefile.PL,1.111,1.112   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run TribeMCL.pm,1.21,1.22   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Root Version.pm,1.10,1.11   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio Species.pm,1.42,1.43   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-db/t/data Titin.fasta,NONE,1.1   Christopher John Fields
• [Bioperl-guts-l] bioperl-db/t 03simpleseq.t,1.1,1.2   Christopher John Fields
• [Bioperl-guts-l] bioperl-db/t/data Titin.fasta.gz,1.1,NONE   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/t BioDBSeqFeature.t,1.3,1.4   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t OntologyStore.t,1.2,1.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio Taxon.pm, 1.5, 1.6 Species.pm, 1.43, 1.44   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/DB/Taxonomy list.pm, 1.7, 1.8 entrez.pm, 1.21, 1.22 flatfile.pm, 1.18, 1.19   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/Bio/Root Version.pm,1.11,1.12   Christopher John Fields
• [Bioperl-guts-l] bioperl-network Makefile.PL,1.6,1.7   Nathan Haigh
• [Bioperl-guts-l] bioperl-live/examples/Bio-DB-GFF load_ucsc.pl, 1.2, 1.3   Christopher John Fields
• [Bioperl-guts-l] [Bug 2060] load_ucsc.pl fails on UCSC's hg17 "refFlat.txt.gz" file   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2069] Bio::Tools:pSW stop codon bug   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-db INSTALL,1.13,1.14   Christopher John Fields
• [Bioperl-guts-l] bioperl-run/t Genscan.t,1.6,1.7   Nathan Haigh
• [Bioperl-guts-l] bioperl-run/t Consense.t,1.4,1.5   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run/Alignment Lagan.pm, 1.12, 1.13   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run/Alignment Lagan.pm, 1.13, 1.14   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run Coil.pm,1.12,1.13   Nathan Haigh
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run Genscan.pm,1.15,1.16   Nathan Haigh
• [Bioperl-guts-l] bioperl-run/t Amap.t, 1.1, 1.2 AnalysisFactory_soap.t, 1.1, 1.2 Analysis_soap.t, 1.5, 1.6 Clustalw.t, 1.31, 1.32   Nathan Haigh
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run/Alignment Lagan.pm, 1.14, 1.15   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/t EMBOSS.t,1.15,1.16   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-live/t SearchIO.t,1.100,1.101   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/t Genewise.t,1.13,1.14   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run Tmhmm.pm,1.13,1.14   Nathan Haigh
• [Bioperl-guts-l] bioperl-run/t Amap.t,1.2,1.3   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/t Clustalw.t,1.32,1.33   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run Tmhmm.pm,1.14,1.15   Nathan Haigh
• [Bioperl-guts-l] bioperl-run/t Tmhmm.t,1.4,1.5   Nathan Haigh
• [Bioperl-guts-l] bioperl-run/t Amap.t,1.3,1.4   Nathan Haigh
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run Eponine.pm,1.15,1.16   Nathan Haigh
• [Bioperl-guts-l] [Bug 2126] New: t/Pise.t warning   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2126] t/Pise.t warning   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2126] t/Pise.t warning   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2126] t/Pise.t warning   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2126] t/Pise.t warning   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2126] t/Pise.t warning   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-run/t Amap.t,1.4,1.5   Nathan Haigh
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run/Alignment Amap.pm, 1.5, 1.6   Nathan Haigh
• [Bioperl-guts-l] [Bug 2127] New: Add Amap, Kalign and Probcon Quiet option   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2127] Add Amap, Kalign and Probcon Quiet option   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-run/t Muscle.t,1.5,1.6   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run/Alignment Muscle.pm, 1.10, 1.11   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run Tmhmm.pm,1.15,1.16   Senduran Balasubramaniam
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run PiseJob.pm,1.14,1.15   Christopher John Fields
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run PiseJob.pm,1.15,1.16   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/t EUtilities.t,1.16,1.17   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/t RestrictionAnalysis.t,1.6,1.7   Brian Osborne
• [Bioperl-guts-l] bioperl-run/t/lib/Test - New directory   Christopher John Fields
• [Bioperl-guts-l] bioperl-run/t/lib/Test/Builder - New directory   Christopher John Fields
• [Bioperl-guts-l] bioperl-run/t/lib/Test/Builder Module.pm, NONE, 1.1 Tester.pm, NONE, 1.1   Christopher John Fields
• [Bioperl-guts-l] bioperl-run/t/lib/Test Builder.pm, NONE, 1.1 More.pm, NONE, 1.1 Simple.pm, NONE, 1.1 Tutorial.pod, NONE, 1.1   Christopher John Fields
• [Bioperl-guts-l] bioperl-run/t Pise.t,1.7,1.8   Christopher John Fields
• [Bioperl-guts-l] [Bug 2128] New: Bio::Restriction::EnzymeCollection cutters()   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2128] Bio::Restriction::EnzymeCollection cutters()   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/Bio/AlignIO metafasta.pm,1.7,1.8   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/Tools/Phylo PAML.pm,1.51,1.52   Brian Osborne
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run/Phylo/PAML Evolver.pm, 1.11, 1.12   Albert Vilella
• [Bioperl-guts-l] bioperl-live/Bio/DB/SeqFeature NormalizedFeature.pm, 1.21, 1.22   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/t BioDBSeqFeature.t,1.4,1.5   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/Graphics FeatureBase.pm, 1.17, 1.18   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/Bio/Graphics FeatureBase.pm, 1.12.4.1, 1.12.4.2   Lincoln Stein
• [Bioperl-guts-l] bioperl-live/t BioDBSeqFeature.t,1.1.2.3,1.1.2.4   Lincoln Stein
• [Bioperl-guts-l] [Bug 2129] New: Documentation of Bio::Restriction::EnzymeCollection is incorrect   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2129] Documentation of Bio::Restriction::EnzymeCollection is incorrect   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2129] Documentation of Bio::Restriction::EnzymeCollection is incorrect   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2129] Documentation of Bio::Restriction::EnzymeCollection is incorrect   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/Bio/Restriction EnzymeCollection.pm, 1.12, 1.13   Brian Osborne
• [Bioperl-guts-l] bioperl-run/Bio/Tools/Run/Phylo/PAML Evolver.pm, 1.12, 1.13   Albert Vilella
• [Bioperl-guts-l] [Bug 2130] New: First feature not parsed in EMBL files missing FH lines by SeqIO/embl.pm   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2130] First feature not parsed in EMBL files missing FH lines by SeqIO/embl.pm   bugzilla-daemon at portal.open-bio.org
  • [Bioperl-guts-l] [Bug 2130] First feature not parsed in EMBL files missing FH lines by SeqIO/embl.pm   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] bioperl-live/t/data no_FH.embl,NONE,1.1   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO embl.pm,1.109,1.110   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/t embl.t,1.5,1.6   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/t/data no_FH.embl,NONE,1.1.2.1   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/SeqIO embl.pm,1.92.4.4,1.92.4.5   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/t embl.t,1.5,1.5.2.1   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/DB/GFF/Adaptor dbi.pm,1.61,1.62   Ben faga
• [Bioperl-guts-l] bioperl-live/Bio/Location Split.pm,1.51,1.52   Christopher John Fields
• [Bioperl-guts-l] bioperl-live/Bio/Location Split.pm, 1.46.4.2, 1.46.4.3   Christopher John Fields

Last message date: Tue Oct 31 17:26:33 EST 2006
Archived on: Tue Oct 31 17:26:41 EST 2006

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